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2012‐2018 MODULEDESCRIPTIONBOOK EuropeanMasterofSciencein Marine Environment and Resources 2013‐0237 MEREMMC A Joint MSc Programme (120 ECTS) MER MER SECRETARIAT ) www.merconsortium.eu R&D CENTRE FOR EXPERIMENTAL MARINE BIOLOGY AND BIOTECHNOLOGY (PLENTZIAKO ITSAS‐ ESTAZIOA; PIE‐UPV/EHU) UNIVERSIDAD DEL PAIS VASCO /EUSKAL HERRIKO UNIBERTSITATEA AREATZA Z/G, E‐48620 PLENTZIA‐BIZKAIA BASQUE COUNTRY (SPAIN MER MSc is a Joint European MSc programme aimed to create multidisciplinary graduates of a transverse research profile, by attracting highly qualified and motivated students from around the world into a fully integrated world class EU MSc programme. The MER MSc programme MEREMMC provides students with competences and skills to develop their marine career in the following fields: • Integrated coastal zone management • Protection of marine and estuarine environments • Adaptation to global climate change • Assessment of marine ecosystem health • Conservation of biodiversity and natural heritage • Management of fisheries and other marine resources Both staff exchange and student mobility are promoted, under a balanced ECTS scheme. Every student must spend at least 30 ECTS each in three different Partner Universities. Successful students will achieve a Multiple MSc degree (120 ECTS) awarded by the three Partner Universities, through which the studies have been undertaken. EuropeanMaster of Science in Marine EnvironmentandResources CONTENTS Structureandcontent...............................2 Mobility.........................................................4 Specialisationpathways..........................5 DescriptionoftheCourses....................13 o MODULE 1: FUNDAMENTALS IN MER...........15 o MODULE 2: ADVANCES IN MER ...................27 o MODULE 3: LARGE‐SCALE PROCESSES ..........51 o MODULE 4: TRANVERSAL SKILLS ..................63 o MODULE 5: RESEARCH IN MER ....................77 1 2 MERConsortium: SOTON,UBx, ULg, EHU ME MER CONSORTIUM EuropeanMaster of Science in Marine EnvironmentandResources 3 4 MERConsortium: SOTON,UBx, ULg, EHU Structure and content The MER MSc programme was designed originally by integrating parts of existing curricula and “ad hoc” newly‐created modules to provide a new curriculum in Marine Environment and Resources, according to the socio‐economic context and the need analysis aforementioned. MER MSc was run for the first time in 2006‐07 with 11 students, based upon existing national and international courses fully accredited and recognized by the University and the Education Ministry of each Partner’s country. These courses were adapted especially and redesigned to integrate international students and staff. Since then, 78 students have followed, or are following, the studies successfully. The programme and procedures have evolved and been harmonized. The information in this Module Description Form can be subjected to minor changes. For up to dated information, please, consult the webpage: www.ehu.es/MER. The MER MSc programme runs full‐time over 2 years (120 ECTS) and consists of advanced courses (90 ECTS) and a Master Thesis, with a dissertation (30 ECTS). Every student follows an individually tailored study programme, by combining the different disciplines that can be studied at each of the partner universities: Coastal Management or Advanced Oceanography in SOTON; Marine Non‐living Resources or Marine Environment in UB1; Marine Living Resources or Marine Pollution (Ecosystem Health Assessment included) in UPV/EHU; and Marine Biology and Ecology in ULg. These are the complementary profiles in which each Partner is excellent and thus recognized internationally. Moreover, the academic and research staff of the 4 universities is pioneering in applying the transverse research profile (integrating diverse concepts, instrumental technology and time‐scales), in the field of marine environment and resources. The coursework is arranged in four modules (Table 1). These module organizations will assist applicants in the selection of their individual study plan and academic administration. The contents of the courses that comprise Module 1 (Fundamentals in MER) are basic foundations or aspects of general interest for MER MSc students. Therefore, they are mandatory and are followed during Semester 1 (introduction to the various fields of oceanography), during Semester 2 (RiMER course), and during Semester 3 (multidisciplinary seminar courses). A student achieves at least 34,5 ECTS in compulsory courses and the remainder (up to 90 ECTS) in optional courses. The MSc Thesis research project (Module 5) is undertaken during Semester 4 (30 ECTS). Two specialisations are available, designed to provide in‐ depth knowledge in individual marine disciplines: Marine Environment and Marine Resources. Selecting one of these specialisations is not a requirement; students can still maintain a multidisciplinary choice of options, within the timetabling constraints of the programme EuropeanMaster of Science in Marine EnvironmentandResources MODULE COURSE 1.‐FUNDAMENTALS: OCEANSCIENCE 2.‐FRAMEWORK: GLOBALOCEAN ENVIRONMENT 3.‐SCIENTIFIC CHALLENGES& OPPORTUNITIES: MARINEENVIRONMENT PROTECTION& RESOURCES EXPLOITATION 4.‐SOCIO‐ECONOMIC COMMITMEMNT: MARINEENVIRONMENT &RESOURCES MANAGEMENT 5.‐DATAANALYSIS: INTERPRETATIONOF ENVIRONMENTALDATA 6.‐DISCOVERY: MARINEENVIRONMENT &RESOURCES RESEARCH Introduction to Biological Oceanography Introduction to Chemical Oceanography Introduction to Marine Geology Introduction to Physical Oceanography Biological Oceanography Chemical Oceanography Dynamic Oceanography Seafloor Geology Applied and Marine Geophysics Biogeochemical Cycles in the Earth system Coastal Sediment Dynamics Deep Sea Ecology (E) Marine GeoArchaeology Introductory Remote Sensing of the Oceans Large Scale Ocean Processes Microfossils, Environment and Time (E) Zooplankton Ecology and Processes (R) TYPE 5 ECTS UNIV CSS1 3,75 SOTON CBS1 6 UB1 OP 7,5 SOTON OP 4 EHU 6 ULg OP 4 EHU OP 6 ULg OP 7,5 SOTON OP 4 EHU OP OP CBS1 OP 6 4 6 6 7,5 4 6 30 ULg EHU UB1 ULg SOTON Instrumentation and Measurements in Operational Oceanography (R) Marine Primary Production (R) Satellite Oceanography and Meteorology Biogeochemical Cycles in the Ocean Interdisciplinary Aspects of Marine Science Marine Plant Biology and Ecology Marine Ecology Marine Nutrient Dynamics and Ecosystem Modelling Remote Sensing of the Oceans Advanced Instrumental Analysis Cellular and Molecular Biomarkers (E) Degradation and Rehabilitation of Estuarine Ecosystems (E) Ecological Quality Assessment in Coastal Ecosystems (E) Ecotoxicity Bioassays in Aquatic Risk Assessment (E) Environmental Analytical Chemistry (E) Environmental Genomics (E) Eutrophication and Harmful Algae (E) Fish and Shellfish Parasitology Fish and Shellfish Reproduction and Endocrinology Fish Welfare and Seafood Quality Histology and Histopathology of Aquatic Animals Marine Molecular Biology and Biotechnology Molecular Population Genetics of Fish and Shellfish (R) Physiological Energetics of Marine Organisms Advanced Marine Zoology (E) Biochemistry, Physiology and Production of Marine Animals (R) Ecotoxicology and Biodegradation of Marine Pollutants (E) Threats to Marine Mammals (E) Functional and Molecular Marine Microbiology (R) International Maritime and Environmental Law Fisheries Socio‐Economics (R) Sustainable Fisheries Management (R) Multicultural Integration in EU Policies for Marine Environment and Resources Management Environmental Data Analysis (E) Analyses of Environmental Data and Modelling Numerical Methods Applied to the Environment Contemporary Topics (in Ocean and Earth Sciences) Introduction to Research Activities Research in Marine Environment and Resources Master Thesis OP CLS3 OP CSS1/OPSS3 OP C C EHU ALL CSS1, compulsory in SOTON‐Semester 1; *CSS3, also compulsory in SOTON‐Semester 3 CBS1, compulsory in UB1‐Semester 1; CLS3, compulsory in ULg‐Semester 3 OP, optional; C, compulsory to all MER students Subjects corresponding to two specialisations: E, Marine Environment; R, Marine Resources 6 MERConsortium: SOTON,UBx, ULg, EHU Mobility This student mobility is seen by us as one of the great successes of our course. It provides the students with the opportunity to interact with staff from different countries and environments; further, to identify the area of research that best suits them. The mobility and the integrated RiMER course give the students an almost complete overview of the research fields, relevant to marine environment and resources. Students improve also their skill in English and in other languages (French, Spanish and Basque). Furthermore, they interact also with students enrolled in the local Master courses at each institution, providing them with a supplementary perspective. Staff mobility is also a relevant part of the MER MSc programme, particularly during the RIMER course. RiMER constitutes an important opportunity for staff to exchange new ideas with colleagues, and to identify potential students for Semester 4 research work. So far, this staff mobility has been financed successfully by the MER consortium, with additional funding from the French, Spanish and Basque Governments. The MER Consortium is committed, and has been hitherto successful, in obtaining financial support for both student and staff mobility An updated complete list of courses and their associated learning outcomes, credit point values, assessment methods, and pre‐ requisites is available at the MER MSc webpage (www.ehu.es/MER; Module Description A Book). As a part of the construction of the EHEA, a pivotal goal of the MEREMMC Programme is to promote international and European cultural exchange and interactions among students. Student mobility has been designed with this purpose. Throughout the coursework, students can make a choice among three alternative mobility pathways (Semester 1‐ Semester 2‐Semester 3: UB1‐ EHU‐SOTON, UB1‐EHU‐ULg, or SOTON‐EHU‐ULg; Semester 4: anywhere). Students receive a strong part of the Module Fundamentals in MER during the 1st Semester in either UB1 or in SOTON (30 ECTS), the 2nd Semester in UPV/EHU (30 ECTS) and the 3rd Semester in SOTON or in ULg. At the beginning of the 2nd Semester, there is an International course (RiMER: Research in Marine Environment and Resources) held at the Aquarium in San Sebastian EUROPEAN MSc in MARINE ENVIRONMENT and RESOURCES in February. U SOUTHAMPTON (S), U BORDEAUX (B), U LIEGE (L), MER U BASQUE COUNTRY (E), ASSOCIATED PARTNERS (A) The MSc Thesis research is 1st Sem S B undertaken during 30 ECTS Semester 4 and can be entirely, or jointly, undertaken in SOTON, EHU, UB1 and ULg or in an 2nd Sem E E associated institutions in 30 ECTS Europe or overseas, which will host a student considering the field of his/her Master thesis, 3rd Sem according the subject a S L 30 ECTS students chooses. All the MSc Thesis are presented in Joint Viva sessions at the end of September in 4th Sem S B E L EHU, with members of all 30 ECTS the Partner universities, staff from Associates and 120 ECTS (24 MONTHS) – Compulsory mobility through 3 partners external (invited) examiners. EuropeanMaster of Science in Marine EnvironmentandResources Specialisation pathways The MSc MER degree is designed to allow specialisation in particular areas of marine science. Two specialisations are available, designed to provide in‐ depth knowledge in individual marine disciplines. Selecting one of these pathways is not a requirement; students can still maintain a multidisciplinary choice of options, within the timetabling constraints of the programme. In addition, both pathways may have either a "physical" or "biological" bias, depending on whether the students follows mobility options "A" or "B": Marine environment 33,5 ECTs in courses labelled "(E)" in the Programme table (p. 12). Suitable for students with a good biological and chemical background, this pathway provides an understanding of the marine pollution processes, their assessment and remediation. Components of the units studied include quantifying the levels and biological effects of pollutants. The marine environment pathway prepares students both for further research, and for work within government and commercial oceanographic and environmental research/consultancy laboratories. Marine resources 30 ECTS in courses labelled "(R)" in the Programme table (p. 12). For students with a good biological or geological and mathematical background, this pathway covers aspects related to the sustainable management and exploitation of marine resources. Courses followed on this pathway prepare students for further research, also for more vocational work in the commercial research/ consultancy sector. Physical bias Intensification in the physical environment, or in non‐living resources. Students follow basic courses in UB1 during Semester 1 and advanced courses in SOTON in Semester 3 Biological bias Intensification in the biological environment, or in living resources. Students follow basic courses in either UB1 or SOTON during Semester 1 and advanced courses in ULg in Semester 3. Common programme All the students follow advanced courses in EHU in Semester 2, with a relevant, but not compulsory, imprint in the field of experimental marine biology and biotechnology, with a focus on marine environment and resources. 7 8 MERConsortium: SOTON,UBx, ULg, EHU Option“A” SEMESTER1–UB1 COURSE Biological Oceanography Chemical Oceanography Dynamic Oceanography Methodological Basis for Environmental Sciences Seafloor Geology TYPE ECTS MOD 1 C1 6,0 4 1 SEMESTER2–EHU COURSE Research in Marine Environment and Resources 6 Optional Modules (x4) TYPE ECTS C 6,0 OP 24 MOD 1 OptionalmodulesinEHU Advanced Instrumental Analysis Cellular and Molecular Biomarkers Degradation and Rehabilitation of Estuarine Ecosystems Ecological Quality Assessment in Coastal Ecosystems Ecotoxicity Bioassays in Aquatic Risk Assessment Environmental Data Analysis Environmental Genomics Environmental Analytical Chemistry Eutrophication and Harmful Algae Fish and Shellfish Parasitology Fish and Shellfish Reproduction and Endocrinology Fish Welfare and Seafood Quality Fisheries Socio‐Economics Multicultural Integration in EU Histology and Histopathology of Aquatic Animals Instrumentation and Measurements in Operational Oceanography Introduction to Research Activities Marine Molecular Biology and Biotechnology Marine Primary Production Molecular Population Genetics of Fish and Shellfish Physiological Energetics of Marine Organisms Satellite Oceanography and Meteorology Sustainable Fisheries Management 4 2 4 2 OP 4 4 2 4 5 2 4 EuropeanMaster of Science in Marine EnvironmentandResources SEMESTER3–SOTON(OPTIONA1) COURSE 4 Optional Modules (x 7,5) TYPE ECTS OP 30 MOD OptionalmodulesinSOTON Applied and Marine Geophysics Biogeochemical Cycles in the Earth system Coastal Sediment Dynamics Contemporary Topics on Ocean and Earth Sciences Deep Sea Ecology Marine GeoArchaeology International Maritime and Environmental Law Introductory Remote Sensing of the Oceans Large Scale Ocean Processes Microfossils, Environment and Time Zooplankton Ecology and Processes 3 1 OP 7,5 3 4 3 SEMESTER3–ULg(OPTIONA2) COURSE Interdisciplinary Aspects of Marine Science 4 Optional Modules (x 6) TYPE ECTS C3 OP 6 24 MOD 1 OptionalmodulesinULg Advanced Marine Zoology Biochemistry, Physiology and Production of Marine Animals Biogeochemical Cycles in the Ocean Ecotoxicology and Biodegradation of Marine Pollutants Functional and Molecular Marine Microbiology Marine Ecology Threats to Marine Mammals Marine Nutrient Dynamics and Ecosystem Modelling Marine Plant Biology and Ecology Numerical Methods Applied to the Environment Policies for Marine Environment and Resources Management Remote Sensing of the Oceans 2 4 2 OP 6 3 2 4 SEMESTER4‐UB1,SOTON,ULg,EHU(orA) COURSE Master Thesis TYPE ECTS C 30 MOD 5 9 10 MERConsortium: SOTON,UBx, ULg, EHU OPTION"B" SEMESTER1–SOTON COURSE Contemporary Topics on Ocean and Earth Sciences Introduction to Biological Oceanography Introduction to Chemical Oceanography Introduction to Marine Geology Introduction to Physical Oceanography 1 Optional Module(x7,5) TYPE ECTS MOD 7,5 C2 OP 3,75 1 7.5 OptionalmodulesinSOTON Applied and Marine Geophysics Biogeochemical Cycles in the Earth system Coastal Sediment Dynamics Deep Sea Ecology Geodynamics & Solid Earth Geophysics International Maritime and Environmental Law Introductory Remote Sensing of the Oceans Large Scale Ocean Processes Microfossils, Environment and Time Zooplankton Ecology and Processes 3 3 OP 7,5 4 3 SEMESTER2–EHU COURSE Research in Marine Environment and Resources 6 Optional Modules (x4) TYPE ECTS MOD C 6,0 1 OP 24 OptionalmodulesinEHU Advanced Instrumental Analysis Cellular and Molecular Biomarkers Degradation and Rehabilitation of Estuarine Ecosystems Ecological Quality Assessment in Coastal Ecosystems Ecotoxicity Bioassays in Aquatic Risk Assessment Environmental Data Analysis Environmental Genomics Environmental Analytical Chemistry Eutrophication and Harmful Algae Fish and Shellfish Parasitology Fish and Shellfish Reproduction and Endocrinology Fish Welfare and Seafood Quality Fisheries Socio‐Economics Multicultural Integration in EU 4 2 4 OP 4 2 4 EuropeanMaster of Science in Marine EnvironmentandResources 2 4 5 Histology and Histopathology of Aquatic Animals Instrumentation and Measurements in Operational Oceanography Introduction to Research Activities Marine Molecular Biology and Biotechnology Marine Primary Production Molecular Population Genetics of Fish and Shellfish Physiological Energetics of Marine Organisms Satellite Oceanography and Meteorology Sustainable Fisheries Management 2 4 SEMESTER3–ULg COURSE Interdisciplinary Aspects of Marine Science 4 Optional Modules (x 6) TYPE ECTS C3 OP 6 24 MOD 1 OptionalmodulesinULg Advanced Marine Zoology Biochemistry, Physiology and Production of Marine Animals Biogeochemical Cycles in the Ocean * Ecotoxicology and Biodegradation of Marine Pollutants Functional and Molecular Marine Microbiology Marine Ecology Threats to Marine Mammals Marine Nutrient Dynamics and Ecosystem Modelling Marine Plant Biology and Ecology Numerical Methods Applied to the Environment Policies for Marine Environment and Resources Management * Remote Sensing of the Oceans * 2 OP 6 3 4 * Students having done BCES, IRSO or IMEL in SOTON in Semester 1 (**) can only follow this courses as extracurricular (beyond the 30 ECTS needed for Semester 3) SEMESTER4‐UB1,SOTON,ULg,EHU(orA) COURSE Master Thesis TYPE ECTS C 30 MOD 5 11 12 MERConsortium: SOTON,UBx, ULg, EHU IMPORTANT NOTICE Please note that the information appearing herein is general and should not be considered at all definitive MER JPB'S aim is to provide orientation about the courses offered but they might be subjected to changes, adjustments and updated (i.e. data in the Type of Teaching tables) before the start of each academic year. EuropeanMaster of Science in Marine EnvironmentandResources Descriptionof theCourses UNIVERSITY OF SOUTHAMPTON (SOTON or SOES) UNIVERSITÉ DE BORDEAUX (UB1) UNIVERSIT'E DE LIÈGE (ULg) UNIVERSIDAD DEL PAÍS VASCO /EUSKAL HERRIKO UNIBERTSITATEA (UPV/EHU or EHU) MER CONSORTIUM (ALL) 13 14 MERConsortium: SOTON,UBx, ULg, EHU EuropeanMaster of Science in Marine EnvironmentandResources 15 The RRS James Cook in dock at the National Oceanography Centre, Southampton. (Plumbago 2006; source Wikipedia) MODULE1 FUNDAMENTALS: OCEANSCIENCE MER MODULE COURSE TYPE ECTS UNIV 1.‐FUNDAMENTALS: OCEANSCIENCE Introduction to Biological Oceanography Introduction to Chemical Oceanography Introduction to Marine Geology Introduction to Physical Oceanography Biological Oceanography Chemical Oceanography Dynamic Oceanography Seafloor Geology CSS1 3,75 SOTON CBS1 6 UB1 16 MERConsortium: SOTON,UBx, ULg, EHU IntroductiontoBiological Oceanography MER SOES 6013 Synopsis Introduction to general ecological principles relating to the ocean and description of the ocean environment. Aims • To provide a basic understanding of the biological processes in the water and how these are affected by the ambient physicochemical conditions. Objectives • At the end of the unit you should be able to understand the biological oceanography of the pelagic ecosystem. Key Skills Acquired • Knowledge of the biological processes in the pelagic environment of the world ocean to include: o Primary and secondary production o Recycling process o Open ocean, shelf and upwelling production Programme 1. General ecological principles relating to the ocean and description of the ocean environment. 2. Physical factors influencing primary productivity. 3. Primary production. 4. Breakdown of organic material, and regeneration of nutrients. 5. Oxygen relationships and anoxic conditions. 6. Pelagic secondary production. 7. Food webs. 8. Importance of vertical flux of organics in water column, implications of vertical migration to such movement. 9. Behavioural and physiological problems associated with vertical migration in the water column. 10. Fisheries and upwelling, the biology of subtropical gyres and the Southern Ocean and long‐term ocean time‐series together with an introduction to modelling in biological oceanography. Learning & Teaching (18 hr; 52 hr personal work) Lectures Boat work Coordinator T Bibby Other teaching staff To be determined Semester 1 Timetable slot To be advised ECTS 3,75 Level Compulsory (Soton) Bibliography The lecture material is summarised at blackboard.soton.ac.uk. Instructions for accessing this material will be given during the course. Core text: Miller, C.B., 2004. Biological Oceanography, Blackwell Science Ltd. ISBN 0‐632‐ 05536‐7. Assessment Written examination (80%) Short Boat Work Report (20%): A 2 page report based on biological measurements made during MSc boat work in Southampton Water. Additional support can be provided for those students who have further or specific needs. Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the SOES Academic Quality & Standards Committee. EuropeanMaster of Science in Marine EnvironmentandResources Coordinator MJ Cooper Other teaching staff B Dickie D Connolly Semester 1 Timetable slot To be advised ECTS 3,75 Level Compulsory (Soton) IntroductiontoChemical Oceanography MER SOES 6015 Synopsis The Unit is designed for graduates in any science discipline, embarking on postgraduate studies in Ocean and Earth Science. Aims To introduce the basic concepts used in chemical oceanography. To provide basic knowledge of chemical processes in the ocean. To provide a framework to undertake more advanced units, within SOES. To introduce some of the techniques and practical skills needed, when undertaking oceanographic chemical sampling and analyses. Objectives At the end of the unit, you should be: 1. able to convert between the different units used in chemical oceanography; 2. familiar with the hydrological cycle and erosion processes 3. aware of the differences between river water and seawater and the reasons for the differences; 4. able to discuss the impact of mid‐ocean ridge hydrothermal activity on ocean chemistry; 5. familiar with conservative and non‐conservative elements and their behaviour in the oceans using examples including nutrients, major and minor element, and trace metals; 6. able to construct 2 box models; 7. aware of the behaviour of elements within estuaries; 8. familiar with the behaviour of dissolved gases in the ocean and their impact on ocean anoxia and carbonate chemistry; 9. able to describe the distribution of the major sediment types in the ocean basins and the chemical controls that result in the observed distributions; 10. aware of the behaviour and importance of trace metals dissolved in seawater; 11. aware of some of the different chemical tracers used in oceanography; and 12. able to interpret an estuarine nutrient data set. Key Skills Acquired 1. 2. 3. 4. Ability to access chemical oceanography literature Data handling and interpretation skills Chemical oceanographic sampling techniques Chemical laboratory techniques and safety Syllabus Chemical oceanography covers many facets of marine environmental science and a multitude of different spatial and temporal scales. Topics covered in this unit span from evolution of the ocean, to controls on chemical speciation in sea water and molecular diffusion processes. Chemical processes are essential in biological systems; they control the geology of the planet and they are key tracers utilised in understanding the physics of the ocean. Learning & Teaching (18 hr; 52 hr personal work) Lectures Boat work (half day) Problem Sheets Online tests Bibliography The lecture material is summarised at blackboard.soton.ac.uk. Instructions for accessing this material will be given during the course. Online test A test with multiple choice and single word answer questions will be available on the Blackboard site for students to give feedback on their knowledge and understanding of the first half of the course. Assessment Written examination (90%): To test the understanding of the theoretical part of the course, through essay‐type questions and also numerical problems. Learning Outcomes 1‐11 Short Practical Write Up (10%): A short data analysis exercise based on the practical work carried out during the boat work week. Learning Outcomes 1,3,7 & 12 Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the SOES Academic Quality & Standards Committee. 17 18 MERConsortium: SOTON,UBx, ULg, EHU IntroductiontoMarineGeology MER SOES 6016 Synopsis The module is designed for graduates in any science discipline embarking on postgraduate studies in Ocean and Earth Science. Aims To give a broad outline of the geological evolution of the ocean basins. To give a broad outline of the methods used presently to investigate the superficial and deep structural features of the sea bed. Objectives At the end of the unit you should: 1. have a solid grounding in marine geology; 2. understand the framework provided by Plate Tectonics; 3. describe sediments found in different water depths and settings, and understand the sedimentary processes leading to their deposition; 4. describe the main geological and geophysical techniques for observing the seabed and sub‐seabed; and 5. understand the driving forces behind, consequences, and importance of sea‐level changes in the geological record. Key Skills Acquired 1. Generic skills: report writing, scientific writing 2. Subject specific skills: presentation and manipulation of data, e.g. seismic interpretation, use of sea‐level curves. Syllabus This module will cover: the inception of ocean basins; the role of mid‐ocean ridges in basin‐scale processes; structure and geological processes at continental margins; and sedimentary processes within the basins. Methodologies covered will include: the principles and design considerations behind echo‐sounder and side‐scan sonar systems; seismic methods; gravity and magnetic measurements; and dating methods. Emphasis will be placed on the present utilisation of these techniques, in both research led and economically led environments. Learning & Teaching (24 hr; 48 hr personal work) Formal Lectures Boat practical Practicals (2): seismic interpretation, sea‐level change and sedimentology Coordinator JM Bull Other teaching staff J Davis Semester 1 Timetable slot To be advised ECTS 3,75 Level Compulsory (Soton) Bibliography Much of the material is summarised at blackboard.soton.ac.uk. Instructions for accessing this material will be given during the course. Assessment Written examination (100%) Learning outcomes 1‐5 Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the SOES Academic Quality & Standards Committee. EuropeanMaster of Science in Marine EnvironmentandResources Coordinator HL Bryden Other teaching staff To be determined Semester 1 Timetable slot To be advised ECTS 3,75 Level Compulsory (Soton) IntroductoryPhysical Oceanography MER SOES 6014 Synopsis Topics covered will include: the physical properties of sea water; the dynamics of wind‐driven ocean circulation; description of the thermohaline circulation; and the role of the ocean in climate variability. Aims To provide an introduction to the physics of the ocean, including descriptive and dynamical oceanography; To give an understanding of the processes that control the movement of water, heat and other properties. Objectives At the end of the unit, you should be able to: 1. understand the physical processes that control the distribution of water properties and the movement of those properties in the ocean. 2. understand the range of time‐ and space‐scales that exist from small‐scale mixing processes (sec, cm) to the global ocean circulation (1000 years, 10000 km). Key Skills Acquired 1. Generic skills: team working at sea; report writing on fieldwork; time management; and problem solving. 2. Subject‐specific skills: knowledge of ocean waves; practical skills in oceanographic data acquisition; presentation of raw data. Learning & Teaching (24 hr; 46 hr personal work) Lectures: 18 Practical sessions: 2 Tutorials: 6 Bibliography The lecture material is summarised at blackboard.soton.ac.uk. Instructions for accessing this material will be given during the course. Recommended books: Pond, S. and G. L. Pickard: Introductory Dynamic Oceanography. Open University: Ocean Circulation ‐ fewer equations, more illustrations Stewart, R. H. Introduction to Physical Oceanography (available on Web, http://oceanworld.tamu.edu/home /course_book.htm ) Further Reading Gill, A. E.: Atmosphere‐Ocean Dynamics Lacombe, H.: Cours D'Oceanographie Physique (for French readers) Assessment Written examination (90%) Tests Learning Outcomes 1 & 2 Boat work report (10%) A 400‐word report on the distribution of water properties in the Solent. Tests Learning Outcome 1 (and generic and subject key skills). Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the SOES Academic Quality & Standards Committee. 19 20 MERConsortium: SOTON,UBx, ULg, EHU BiologicalOceanography MER UB1 0001 Synopsis Biological community structures in marine environment, as a function of control variables and forcing parameters. Aims To provide an introduction to biological oceanography and the methods and procedures employed in marine biological exploration. Objectives At the end of the unit, you should: 1. understand the different options of community structures in marine environment, as a function of control variables and forcing parameters. Key Skills Acquired At the end of the unit, you should be able to: 1. apply tools for the description and comparison of marine populations, diversity measurements and ecosystem functioning, as a response to environmental conditions. 2. become familiar with basic laboratory and fieldwork in biological oceanography Programme 1. Introduction to tools for the description and comparison of marine populations, diversity measurements and ecosystem functioning, as a response to environmental conditions. 2. Darkness‐chemotrophic systems 3. Heterogeneous systems‐observation scales 4. Interaction between species and environment 5. Research stage at the Arcachon Marine Station 6. Oligothrophic systems 7. Interactions between plankton and benthic communities 8. Turbid and brackish water systems. Learning & Teaching Formal Lectures: 34 Seminar: 6 Field work: 4 Laboratory practicals: 10 Coordinator X de Montaudouin Other teaching staff UB1 and Arcachon staff Semester 1 Timetable slot To be advised ECTS 6 Level Compulsory (UB1) Bibliography Delivered during the course Assessment Written examination (50 %) Oral examination (10 %) Report (40%) Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the UB1 Academic Quality & Standards Committee. EuropeanMaster of Science in Marine EnvironmentandResources ChemicalOceanography MER UB1 0002 Synopsis Topics covered will include: the description of the chemistry of sea‐ water; marine biogeochemistry; chemical fluxes from the continent to the ocean; ocean‐atmosphere interactions; and oceanic crust‐ sea‐water interactions. Aims To provide an understanding of: the chemical composition of the sea and learn quantitative approaches to element reactivity at various interfaces and interactions with marine biosphere, (bio)geochemical transfer processes, at different scales (time and space).. Objectives At the end of the Unit, you should: 1. understand the chemistry of seawater; 2. understand the concepts of the biogeochemistry and their principal chemical processes; and 3. understand the fluxes between the continent and the ocean. Key Skills Acquired At the end of the Unit, you should be able to: 1. understand through an interdisciplinary approach the chemical composition of the sea 2. become familiar with quantitative approaches to element reactivity at various interfaces, interactions with the marine biosphere, (bio)geochemical transfer processes at different scales of time and space. Programme 1.‐ Introduction to chemical composition of the seas. 2.‐ Biogeochemical processes. 3.‐ Marine carbon cycle 4.‐ Radionuclides 5.‐ Continent‐ocean interactions 6.‐ Estuaries 7.‐ Mass transfers, from the photic zones to deep water 8.‐ Water‐rock interactions 9.‐ Analytical instruments and techniques in water geochemistry 10.‐ Research stage at the Arcachon Marine Station. 11.‐ Research stages at the national coastal Research Vessel ‘Côte de la Manche’. Learning & Teaching Formal Lectures: 30 Seminar: 11 Field work: 10 Coordinator P. Martinez Other teaching staff P. Anschutz J. Schäfer Semester 1 Timetable slot To be advised ECTS 6 Level Compulsory (UB1) Bibliography Delivered during the course Assessment Written examination (60 %) Practical examination (40%) Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the UB1 Academic Quality & Standards Committee. 21 22 MERConsortium: SOTON,UBx, ULg, EHU DynamicOceanography MER UB1 0003 Synopsis Fundamental knowledge on Ocean dynamics (fluid mechanics, physical properties, global circulation) Aims To provide an introduction to Ocean Dynamics (fluid mechanics, physical properties, global circulation) Objectives At the end of the Unit, you should: 1. understand fluid dynamics; 2. understand the physical seawater properties and global circulation; and 3. understand atmospheric and meteorological physical parameters. Key Skills Acquired At the end of the unit, you should be able to: 1. solve problems of fluid dynamics 2. interpret data of descriptive physical oceanography 3. interpret meteorology data Programme 1.‐ Introduction to fluid dynamics (e.g. Navier Stokes equations, geostrophic equilibrium, Ekman transport, vorticity) 2.‐ Descriptive Oceanography (physical seawater properties, global circulation, regional Oceanography, ocean‐atmosphere interactions) 3.‐ Meteorology (physical parameters, global atmospheric circulation, thermodynamics, visit to Meteo France) Learning & Teaching Formal Lectures: 25 Seminar: 30 Field work: 6 All more or less mixed to into «integrated courses» Coordinator N Senechal Other teaching staff A Sottolichio Semester 1 Timetable slot To be advised ECTS 6 Level Compulsory (UB1) Bibliography Delivered during the course Assessment Written examination (30 %) Oral examination (20 %) Practical examination (50%) Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the UB1 Academic Quality & Standards Committee. EuropeanMaster of Science in Marine EnvironmentandResources SeafloorGeology MER UB1 0004 Synopsis General characteristics of marine environments, with respect to , geology and oceanography, as a basis for further studies in different domains of marine sciences, (e;g. paleoclimatology, sedimentology, hydrography, etc.). Aims To provide an introduction to the chemistry of seawater, through qualitative and quantitative approaches and presentation of the chemical interactions between the lithosphere, biosphere, and the atmosphere and the ocean. Objectives At the end of the Unit, you should: 1. Understand the general characteristics of marine environments, with respect to geology and oceanography, as a basis for further studies in different domains of marine sciences (e;g. paleoclimatology, sedimentology, hydrography, etc.). Key Skills Acquired At the end of the Unit, you should be able to: 1. interpret basic data in marine geology (Imaging, seismic, magnetic anomalies); and 2. become familiar with sampling techniques Programme: 1. Introduction to the main physiographic domains 2. Methodological approaches and tools in Marine Geology (imaging, seismic, magnetic anomalies, etc.). 3. Sampling techniques (e.g. coring). 4. Composition, structure and evolution of marine ground. 5. Interactions between oceans and inner planetary dynamics. 6. Marine sediments, as archives of geodynamics and paleoclimate. 7. Field trip and core sampling on‐board a research vessel on the Gironde Estuary. 8. Field trips and core sampling on‐board a research vessel around the Arcachon Lagoon. Learning & Teaching Formal Lectures: 18 Seminar: 14 Field work: 12 Coordinator JL Schneider Other teaching staff J Bonnin T Corrège Semester 1 Timetable slot To be advised ECTS 6 Level Compulsory (UB1) Bibliography Delivered during the course Assessment Written examination (50 %) Practical examination (50%) Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the UB1 Academic Quality & Standards Committee. 23 24 MERConsortium: SOTON,UBx, ULg, EHU EuropeanMaster of Science in Marine EnvironmentandResources 25 MODULE2 FRAMEWORK: GLOBALOCEAN ENVIRONMENT MODULE 2.‐FRAMEWORK:GLOBAL OCEANENVIRONMENT COURSE Applied and Marine Geophysics Biogeochemical Cycles in the Earth system Coastal Sediment Dynamics Deep Sea Ecology (E) Marine GeoArchaeology Introductory Remote Sensing of the Oceans Large Scale Ocean Processes Microfossils, Environment and Time (E) Zooplankton Ecology and Processes (R) MER TYPE ECTS UNIV OP 7,5 SOTON OP 4 EHU 6 ULg Instrumentation and Measurements in Operational Oceanography (R) Marine Primary Production (R) Satellite Oceanography and Meteorology Biogeochemical Cycles in the Ocean Interdisciplinary Aspects of Marine Science Marine Plant Biology and Ecology Marine Ecology Marine Nutrient Dynamics and Ecosystem Modelling Remote Sensing of the Oceans OP CLS3 OP 26 MERConsortium: SOTON,UBx, ULg, EHU AppliedandMarineGeophysics Coordinator M Shina Other teaching staff To be determined Semester 1 or 3 Timetable slot To be advised ECTS 7,5 Level Optional MER SOES 6004 Synopsis Topics central to applied geophysics in the marine environment: seismology; potential field methods; marine electromagnetic surveying; application of potential field theory to geophysical exploration; and controlled‐source electromagnetic methods. Aims To develop the principles of geophysical exploration, from a basic level to that of current practice in exploration industry, together with research applications. Objectives At the end of the Unit, you should be able to: 1. 2. 3. 4. 5. 6. explain the main techniques used in multi‐channel seismic reflection data processing; interpret and report on seismic reflection profiles; describe limits to the resolution of seismic and potential field data and design a data acquisition and processing strategy for a given target; explain aspects of how seismic reflection methods and electromagnetic methods are used to identify and optimise hydrocarbon; understand the core theory and practice underlying electromagnetic exploration methods; and process, analyze and interpret potential field and electromagnetic data, to infer subsurface structure Bibliography Key Skills Acquired At the end of the unit, you should be able to: 1. 2. 3. 4. use computer programs to model gravity, magnetic and electromagnetic data; report writing to summarise scientific findings; interprete seismic reflection profiles; use of ProMAX software, for the processing and analysis of seismic reflection data. Syllabus The module covers, at an advanced level, three topics that are central to applied geophysics in the marine environment. The first is reflection seismology; the second is potential field methods; and the third is marine electromagnetic surveying. Seismology : basic seismic processing operations (including correlation, convolution, deconvolution, frequency filtering and migration). Applications of spectral analysis, using Fourier‐based methods. Examples from hydrocarbon exploration and continental margin studies ( seismic stratigraphy, methods of reservoir identification and 3D surveying). Practicals exercises: seismic processing and interpretation. Application of potential field theory to geophysical studies with a particular emphasis on gravity and magnetic surveying. Advanced methods for anomaly separation and filtering, based upon spectral analysis and spatial derivatives. Computer modeling and analysis exercises. marine and airborne surveying and data processing. Controlled source electromagnetic methods, as applied in marine survey operations (theory and the fundamentals of data acquisition and processing). Computer‐based practical exercises: modeling marine controlled source electromagnetic datasets, and examining the sensitivity of this type of data to resistivity anomalies in the sub‐surface. Learning & Teaching (51 hr + 99 hr personal work) Lectures Laboratory classes A wide range of support can be provided for those students who have further or specific learning and teaching needs. Much of the lecture material is summarised at blackboard.soton.ac.uk. Instructions for accessing this material will be given during the course. Core text: W. M. Telford, L. P. Geldart & R. E. Sheriff, Applied Geophysics, 2nd Edition (1990), Cambridge University Press Background reading: P. Kearey, M. Brooks & I. Hill, An Introduction to Geophysical Exploration, 3rd Edition (2002), Blackwell; E. J. W. Jones, Marine Geophysics, 1999, Wiley Assessment Theory examination (60%): The questions normally will require the integration of information from more than one part of the course. Tests Learning Outcomes 1,3,4,5 Practical (20%): Seismic processing and interpretation exercises. Tests Learning Outcomes 1 & 2 Practical (20%): Potential field or EM data exercises. Tests Learning Outcomes 5 and 6. Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the SOES Academic Quality & Standards Committee. EuropeanMaster of Science in Marine EnvironmentandResources BiogeochemicalCyclesinthe Earthsystem Coordinator T Tyrrell Other teaching staff To be determined Semester 1 or 3 Timetable slot To be advised ECTS 7,5 Level Optional MER SOES 6007 Synopsis This module examines at the operation of the Ocean as a biogeochemical entity within the larger Earth System. There is a strong focus on how the Earth System will respond to anthropogenic impacts and global change. Aims To provide at an advanced level, an overview of the Earth System; in particular biogeochemical processes, feedbacks and fluxes. To examine how this knowledge contributes to understanding the global cycles of important elements, including carbon. To cover examples from the modern ocean and the geological record, considering timescales from seconds to millions of years. Objectives At the end of the Unit, you should be able to: 1. 2. 3. 4. 5. 6. 7. Have the ability to critically read the primary literature, understand the techniques used, their assumptions and limitations; Be able to assimilate and to synthesise and discuss Earth System processes and biogeochemical cycles; Be able to understand how they may be regulated via negative feedbacks; Be able to devise, construct and solve geochemical mass balances; Be able to estimate residence times; Be able to solve quantitative problems; Be able to understand anthropogenic effects on ocean carbonate chemistry Key Skills Acquired At the end of the Unit, you should be able to: 1. 2. 3. address numeracy and Problem Solving; acquire literature access skills and critical reading; and obtain laboratory analysis of dissolved gases and data interpretation. Bibliography The lecture material is summarised at blackboard.soton.ac.uk. Instructions for accessing this material will be given during the course. Assessment Theory Examination (60%) Tests Learning Outcomes 1‐7 Syllabus This module examines in greater depth the sources, sinks and cycles of chemical constituents in the Earth System, particularly the Ocean, with particular reference to: processes at the ocean boundaries; the role of particle fluxes and scavenging in removing and redistributing material; and the interactions of biological, geological, chemical and physical oceanographic phenomena (geochemical cycles of trace elements and major biogeochemical elements; major nutrient cycles and their homeostatic regulation). Particular focus is placed upon the ocean carbon cycle and ocean acidification. Processes at the ocean boundaries: coupling of the ocean and atmosphere as geochemical systems, fluxes of aerosols and gases; and the chemistry of hydrothermal systems. Practical sessions include computer modeling of nutrient and carbon cycles in the ocean , together with manipulation of spreadsheets to determine impact of fluxes on the ocean. On‐line quizzes are used to permit consolidation of acquired skills. Learning & Teaching (40 hr + 110 hr personal work) Lectures Laboratory classes Reading assignments Tutorial support A wide range of support can be provided for those students who have further or specific learning and teaching needs. Computing Assignment (20%) Tests Learning Outcomes 2‐7 Essay (20%) A 2500 word essay (excluding references, tables and figures) on a topic set by the coordinator. Tests Learning Outcomes 1,2,6 Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the SOES Academic Quality & Standards Committee. 27 28 MERConsortium: SOTON,UBx, ULg, EHU CoastalSedimentDynamics Coordinator CL Amos Other teaching staff To be determined Semester 1 or 3 Timetable slot To be advised ECTS 7,5 Level Optional MER SOES 3014 Synopsis Principles of coastal sediment dynamics, in a quantitative manner. Flow properties, benthic boundary layer and resulting sediment responses, under waves and steady currents. Sediment transport algorithms and the resulting evolution of the bed. Aims To define the basic concepts of sediment movement within coastal and inner continental shelf waters, and the processes that control this movement. To define the methods, techniques and equipment used in the study and measurement of sediment transport within a coastal setting. Objectives At the end of the Unit, you should be able to: 1. Define and describe flow structures under unidirectional and wave tidal induced currents, alone and in combination. 2. Have an understanding of the prediction of sediment transport rates and directions. 3. Have a broad knowledge of the terminology and expressions used in coastal sediment dynamics and, in some cases, their derivation. 4. Distinguish between non‐cohesive and cohesive sediment dynamics and what technologies and theories would be appropriate to use to evaluate issues, in each case. Key Skills Acquired 1. 2. 3. 4. Problem Analysis and numerical computation Written Communication Ability to learn Critical Analysis Syllabus Fundamental principles of coastal sediment dynamics in a quantitative manner. Flow properties, the benthic boundary layer, and resulting sediment responses under waves and steady tidal currents are summarised. Sediment transport algorithms are described, and the resulting evolution of the bed defined. (Note: This module provides the foundation for Applied Sediment Dynamics where the theories learned are put into practice) Learning & Teaching (26 hr + 124 hr personal work) Lectures Tests: Four, 1‐hour tests will be given at regular intervals through the course. The results will be evaluated in class and feedback given rapidly for misconceptions and deficiencies in learning A wide range of support can be provided for those students who have further or specific learning and teaching needs. Bibliography Blackboard: Much of the lecture material is summarized at blackboard.soton.ac.uk. Instructions for accessing this material will be given during the course. Assessment Written Examination (50%) Tests Learning Outcomes 1‐2. Tests (50%) Tests Learning Outcomes 3‐ 4. Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the SOES Academic Quality & Standards Committee. EuropeanMaster of Science in Marine EnvironmentandResources Coordinator P Tyler Other teaching staff To be determined Semester 1 or 3 Timetable slot To be advised ECTS 7,5 Level Optional DeepSeaEcology MER SOES 6008 Synopsis The course explores all aspects of the physical environment of the deep sea, including vents, considering the fauna of the deep sea within this framework. Aims To give a detailed knowledge of the oceanography of the deep sea, the largest single ecosystem on Earth. To introduce students to a variety of aspects of the physical and chemical environment. To examine the distributions of fauna in different types of deep sea environments. Objectives At the end of the Unit, you should be able to: 1. Determine those factors that are of physico‐chemical significance in the deep sea; 2. Understand how these factors affect process in the animal communities; 3. Recognise a variety of ecological variables and their consequences in the deep sea including species diversity, biomass and zonation; and 4. Appreciate the latest research in deep‐sea oceanography. Key Skills Acquired 1. Knowledge of the largest environment on Earth. Syllabus The deep‐sea occupies at least 50% of the surface of the globe. The original concept was that the deep sea was a tranquil environment, with little variation in its dominant physico‐chemical and biological variables. In the last 20 years this paradigm has been challenged and we now know that the deep sea can be a highly dynamic environment, in which there are benthic storms and seasonal processes. There is also high species diversity. The original concept was that the system was heterotrophic but, with the discovery of hydrothermal vents and cold seeps, we have environments in which the basis of life is chemical energy, rather than sunlight. Learning & Teaching (26 hr + 124 hr personal work) Lectures Seminar series: a series of seminars will be delivered by guest speakers covering topics at the forefront of deep sea ecology. Tutorial support A wide range of support can be provided for those students who have further or specific learning and teaching needs. Bibliography Blackboard: the lecture material is summarized at blackboard.soton.ac.uk. Instructions for accessing this material will be given during the course. Assessment Written Examination (75%) . Tests Learning Outcomes 1‐4 Coursework (25%) An analysis of a video of the East Pacific hydrothermal vents. Tests Learning Outcomes 2 and 3. Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the SOES Academic Quality & Standards Committee. 29 30 MERConsortium: SOTON,UBx, ULg, EHU MarineGeoArchaeology MER SOES 6061 Synopsis The module covers aspects of the marine environment, formation processes and marine geophysical prospection techniques. It includes a short (three day maximum) field programme is to provide the acquisition from inter‐tidal and/or marine locations. Aims • To provide an understanding of what approaches are used by academia and the commercial sector to investigate the geoarchaeological record. • To provide the students with the skills set to be able to undertake a full geoarchaeological assessment of a marine or coastal site (from desk based analysis to field based data – acquisition, processing and interpretation. • To provide an understanding of how marine and coastal environments impact and/or enhance the archaeological record. Objectives At the end of the Unit, you should be able to: 1. Plan and execute a geoarchaeological assessment of coastal or full marine archaeological site; 2. Be able to acquire, analyse and evaluate a wide range of archaeological, geological and oceanographic data including (heritage records; in situ and remotely (Lidar) acquired topographic data; bathymetric and some sub‐ surface seismic data; hydrodynamic data; hand auger sediment and faunal samples; 3. Place local site studies in both regional and global contexts; 4. Have a full appreciation of the key issues in marine geoarchaeology in terms of both submerged landscape studies and archaeologically specific site dynamics; 5. Have confidence in orally presenting in extended format integrated archaeological and earth science material; and 6. Write a full geoarchaeological report of a field site to English Heritage standards. Key Skills Acquired At the end of the Unit, you should be able to: • Generic skills: team working; report writing; oral presentations; time management • Subject‐specific Skills: Knowledge of all of the key topics covered. Learning & Teaching (47 hr: 103 hr personal work) • Lectures • Practicals: 6 x 3 h (4 on GIS, one on particle size analysis and one on core data interpretation using Rockworks. • Field sessions: 3 sessions in the field or on boat. Support: is provided by staff and/or postgraduate demonstrators where appropriate. Including one surgery session where questions to facilitate the field report can be answered. Coordinator Justin Dix Other teaching staff To be determined Semester 1 or 3 Timetable slot To be advised ECTS 7,5 Level Optional Bibliography Blackboard: The lecture material is summarised at blackboard.soton.ac.uk. Instructions for accessing this material will be given during the course. Assessment Presentations (25%) A 20 minute oral presentation, assessed by academic staff. Tests All Learning Outcomes 5000 Word Geoarchaeological Field Report (75%) Tests All Learning Outcomes. Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the SOES Academic Quality & Standards Committee. EuropeanMaster of Science in Marine EnvironmentandResources Coordinator I Robinson Other teaching staff To be determined Semester 1 or 3 Timetable slot To be advised ECTS 7,5 Level Optional IntroductoryRemoteSensingof theOceans MER SOES 6017 Synopsis Introduction at Masters level to the ways in which remote sensing from satellites is used in oceanography. Aims To provide an overview of how the ocean can be observed and measured remotely using sensors on Earth orbiting satellites. To provide an understanding of the role of remotely‐sensed data in the study of the oceans Objectives At the end of the Unit, you should: 1. Acquire a new Perspective: grasp what is special about the view of the ocean provided from satellites, to enhance your knowledge of the ocean; 2. Methodology: understand the main methods of ocean remote sensing and the ocean properties that can be measured; 3. Importance in Ocean Science: discover some of the specific ways in which satellite ocean data make unique contributions to ocean science; 4. Wider Applications: find out how satellite ocean data are being applied for the benefit of human activity in the ocean; and 5. Acquire image handling skills: learn how to acquire, enhance, present and apply satellite image data in scientific and educational contexts. Key Skills Acquired At the end of the Unit, you should be able to: 1. 2. 3. Communication: scientific writing. Information technology: image processing; manipulation and evaluation of satellite datasets acquired from the Internet. Working in teams. Bibliography Blackboard: The lecture material is summarized at blackboard.soton.ac.uk. Instructions for accessing this material will be given during the course. Assessment Short tests (30%) 3 x short tests on remote sensing methods explained in the lectures. Tests Learning Outcomes 1‐5 Material for a “popular science” 2‐ page article, using satellite image data to present an ocean phenomenon, with up to 500 words of supporting text. Tests Learning Outcomes 1, 2, 3, 4 Syllabus Topics to be covered include: • • • • • • Basic principles: Introductory lectures on remote sensing methods, coupled with a practical introduction to image processing self paced on‐ line introductory tutorials. Sea surface temperature: Method of infra‐red and passive microwave remote sensing, detection of clouds and removal of atmospheric contamination, studies of ocean eddies and fronts, monitoring of global temperature patterns. Ocean colour: Measuring chlorophyll and suspended sediment concentration from water colour as detected from aircraft and satellites. Imaging Radar: How satellite synthetic aperture radars "see" the ocean and ocean information in radar images. Methods include, altimeters plus: Ocean topography winds and waves measured globally from satellites. Earth observation systems: Global programmes, synergy between different types of data. Lecture material is reinforced by computer practicals using remote sensing data. Learning & Teaching (47 hr: 103 hr personal work) Lectures Practicals: interactive computer‐based practical work with image data, contained in a modular programme. A wide range of support can be provided for those students who have further or specific learning and teaching needs. Practical assignment (30%) Essay and presentation about an application of satellite oceanography (40%) An individual 1200‐1500 word essay (30%) with a class presentation in small groups (10%). Tests Learning Outcomes 1‐5 Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the SOES Academic Quality & Standards Committee. 31 32 MERConsortium: SOTON,UBx, ULg, EHU Coordinator N Wells Other teaching staff To be determined Semester 1 or 3 Timetable slot To be advised ECTS 7,5 Level Optional Large‐scaleOceanProcesses MER SOES 6005 Synopsis Introduction to the physical processes, both deep ocean and ocean margins. Processes which give rise to ocean circulation. Global processes (tides, wind, buoyancy forcing) and their influence on deep ocean and ocean margins. Aims To provide an introduction to the dynamics of the deep ocean and ocean margins. To explore and quantify the processes which give rise to ocean circulation. To explore and quantify the links between ocean circulation and climate. Objectives At the end of the unit, you should: 1. understand the dynamical approach to physical oceanography. 2. understand the mathematical formalism of dynamical ocean models. 3. interpret the mathematical results from dynamical ocean models. 4. quantify these results for the ocean circulation. 5. have an appreciation of the physical interactions between the deep ocean, the atmosphere and the shelf seas and their relation to global processes. Key Skills Acquired At the end of the Unit, you should be able to: 1. 2. 3. 4. Develop numerical and mathematical skills. Have a working knowledge of mathematical models and techniques. Application of mathematical methods to ocean circulation. Use of MATLAB, to analyse and interpret ocean data. Syllabus The module will explore the processes which give rise to ocean circulation and how recent observations (e.g. World Ocean Circulation Experiment) are providing new insights into how the system works. The module will include global processes (tides, wind, buoyancy forcing) and how these processes have markedly different influences on the deep ocean and on ocean margins. For example, the deep ocean is governed mainly by geostrophic flow, whilst the shelf seas are influenced strongly by frictional processes. The global ocean circulation: its causes, its measurement and its role in the climate system will be explored. Learning & Teaching (41 hr + 109 hr personal work) Lectures MATLAB sessions Practical sessions Tutorial support A wide range of support can be provided for those students who have further or specific learning and teaching needs. Pre‐requisites: The mathematical content of this course is relatively high and experience in handling mathematical equations is desirable. Bibliography Blackboard: The lecture material is summarized at blackboard.soton.ac.uk. Instructions for accessing this material will be given during the course. Assessment Written examination (75%) Tests Learning Outcomes 1‐5 Practicals (25%) Two computer based assessments: one Hydrographic practical (10%) and the other a Problem sheet (15%) Tests Learning Outcomes 1‐5 Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the SOES Academic Quality & Standards Committee. EuropeanMaster of Science in Marine EnvironmentandResources Coordinator I Harding Other teaching staff To be determined Semester 1 or 3 Timetable slot To be advised ECTS 7,5 Level Optional Microfossils,Environmentand Time MER SOES 6022 Synopsis General introduction to the various groups of microfossils. Alongside their morphology and taxonomy, you will learn how certain groups can be used for the solution of geological problems, or for hydrocarbon exploration. Aims To give a general introduction to the various groups of microfossils, detailing their morphology, taxonomy, biology, and ecology. To show how certain microfossil groups can be used in an applied manner for the solution of geological problems (such as biostratigraphy, palaeoecology, palaeoceanographic interpretation, proxies for climatic change, etc.). To detail some of the industrial applications of microfossils, particularly those related to hydrocarbon exploration. To provide a basic introduction to microfossil extraction/preparation methods. To demonstrate the utility of various microfossil groups in hydrocarbon exploration (source rock analyses, thermal maturity studies, etc.). To undertake an investigative exercise based on a hydrocarbon exploration borehole core. Objectives At the end of the Unit, you should be able to: 1. 2. 3. 4. 5. 6. assign a microfossil to its major taxonomic group (e.g. foram, ostracod, dinoflagellate, spore, pollen, etc.). be aware of, and to recognise, the main morphological and compositional features which allow assignation of an individual fossil to each group. draw basic stratigraphic conclusions about microfossil assemblages (e.g. age of rock unit, correlations, etc.). deduce palaeoecological and/or palaeoceanographic interpretations from different assemblages of microfossils. understand the applicability of particular microfossil groups to particular lithologies and particular geological time periods. determine which microfossil groups are most applicable to the solution of a variety of particular geological problems. Key Skills Acquired 1. 2. Generic skills: utilise stereo binocular, transmitted and reflected light microscopes; use of scanning electron microscope; and report writing. Subject‐specific skills: practical experience of microfossil identification to species level; compilation, utilisation and interpretation of biostratigraphic and palaeoenvironmental information; an appreciation of how to prepare and mount micropalaeontological samples for observation, and the safety precautions necessary to observe during such preparations; to have developed a background knowledge of micropalaeontological literature sources. Syllabus Introduction to the various microfossils groups and detail their utility as important indicators of past environments, by examining the ecology of living microplankton taxa and extrapolating this to the fossil record (palaeoecology, palaeoceanography). Applicability of different microfossil groups in providing both relative time‐scales (through zonal schemes) and biostratigraphic correlation will be detailed, as will the role of certain microfossils in understanding evolutionary processes (particularly in groups such as land plants). Microplankton as agents of global environmental change will also be investigated, especially with regard to fluxes of CaCO3 and C and, hence, to CO2 in the atmosphere. Microfossil groups which form mineralised skeletons (calcareous, siliceous, phosphatic) and the organic‐walled microfossils (known as palynomorphs). Learning & Teaching (35 hr + 115 hr personal work) Lectures Practical classes and demonstrations Training in processing methods Tutorial support Seminar Guest Lectures Formative Assessment Web based assessments: Two web‐based assessments will be run at specified times in NOCS Computer Cluster (dates in the timetable). These will be based on the Geodata Unit’s WebQuiz programme, and guidance in answering the form of the questions will be provided. Tests learning outcomes 1‐6 Practical exercises & demonstrations: A series of practical exercises and demonstrations of material will be set during the course. Tests learning outcomes 1‐6. Attendance at practical classes is expected, as some of these may form the basis of questions in the web assessments, the written exam and the practical exam. A guided tour of the micropalaeontological laboratory facilities will be conducted, in addition to the opportunity to have hands‐on experience of using the Scanning Electron Microscope for observation of microfossils. Tests learning outcomes 1‐2 A wide range of support can be provided for those students who have further or specific learning and teaching needs. Bibliography Blackboard: The lecture material is summarized at blackboard.soton.ac.uk. Instructions for accessing this material will be given during the course. Assessment Theory Examination (40%) Tests Learning Outcomes 3‐6 Micropalaeontological Sample Analysis Project (40%) Micropalaeontologically‐based projects showing the industrial applications of microfossils. Tests learning outcomes 1‐6 Practical Examination (20%) Tests learning outcomes 1‐6. Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the SOES Academic Quality & Standards Committee. 33 34 MERConsortium: SOTON,UBx, ULg, EHU Coordinator J Williams Other teaching staff To be determined Semester 1 or 3 Timetable slot To be advised ECTS 7,5 Level Optional ZooplanktonEcologyand Processes MER SOES 6009 Synopsis The module will assess the role of zooplankton in the global marine ecosystem. Aims To establish the role of zooplankton in the pelagic and global marine community and to introduce holo‐ and meroplankton biodiversity. To introduce the biological and non‐biological factors which regulate community structure from the meso‐ to microscale. To review the technologies available to sample the community in the field and to introduce procedures of laboratory analysis of abundance and biomass. To establish the impact of zooplankton in the 'economy' of pelagic trophic web; introducing the impact of zooplankton grazing, zooplankton as predators, 'alternative' food resources; to review the methods available the assess feeding; zooplankton metabolic responses. To review zooplankton reproduction and life cycle strategies and the methods available to estimate zooplankton production; to review zooplankton 'models'. To introduce the responses of zooplankton to water mass movements; tidal advection and behavioural/physiological methods to avoid displacement; meroplankton settlement behaviour; diurnal vertical migration and its impact on the individual and the community. To review the use of zooplankton as indicators of water mass movement; global climate change and pollution. To assess the commercial importance of zooplankton. Objectives At the end of the Unit, you should: 1. appreciate the role of zooplankton in marine ecosystems and recognise the diversity 2. 3. 4. 5. 6. 7. 8. of mero‐ and holplankton, and be able to identify the common species of temperate water zooplankton; appreciate the factors that regulate the distribution patterns of zooplankton and be able the assess the methodologies available to design an effective field sampling programme; understand the role of zooplankton in the pelagic trophic web and be able to appreciate the constraints in measuring zooplankton feeding in the laboratory and the field and structuring the energetic budget of individual zooplankters; appreciate the methods available to estimate zooplankton secondary production, and the nature of the raw data required for the calculations; appreciate the behavioural and physiological response employed by zooplankton to counter tidal advection/population dispersal and to undertake 24hr diurnal vertical migration; assess the role of zooplankton as indicators of a range of environmental change; design and conduct experiments on live zooplankton; use a range of library information services, to aid production of well structured written reports. Key Skills Acquired At the end of the unit, you should be able to: 1. 2. Generic: Small groups ~ boatwork and laboratory practical programme. Individual assessment of data quality, presentation of written reports, library information retrieval and critical analysis of literature. Subject‐based: Boatwork and practical laboratory skills in zooplankton taxonomy and experimentation. Interrogation, analysis and presentation of raw data. Knowledge of zooplankton subject area. Syllabus Biological and non‐biological forcing‐factors structuring biodiversity, community and population patterns from the meso‐ to the microscale. Methods of conducting and analysing field sampling programmes. The position of zooplankton in the 'economy' of the pelagic ecosystem: (a) feeding and reproductive strategies of a range of zooplankton types; (b) make‐up of zooplankton energy budgets; and (c) methods for the estimation and modelling of zooplankton secondary production. Responses of individual zooplankters to their environment (factors regulating tidal advection, larval settlement and the implications of diurnal vertical migration). The zooplankton as biological indicators of water mass movement, global climate change and pollution. The potential of zooplankton as a commercial resource. Practical classes: the diversity of mero‐ and holoplankton forms and formal taxonomic identification of temperate water species. Measure and analyze the impact of zooplankton grazing pressure, in relation to the quantity, quality and species composition of available diet. Learning & Teaching (28 hr + 122 hr personal work) Lectures: 22 Student reportk Practical sessions Boatwork Revision support Bibliography Blackboard: The lecture material is summarized at blackboard.soton.ac.uk. Instructions for accessing this material will be given during the course. Assessment Theory Examination (60%) A 2½ hour written examination paper, choice of three questions from six to be answered. Tests learning outcomes 1‐6 & 8 Practical coursework (40%) 2 x 2500 word reports (20% each) on practical exercises are submitted 2 weeks after class. Provisional marks returned within one week, to provide feedback. Tests learning outcomes 1, 3, 7 & 8. Laboratory coursework is subject to standard SOES late submission penalties Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the SOES Academic Quality & Standards Committee. EuropeanMaster of Science in Marine EnvironmentandResources Instrumentationand MeasurementsinOperational Oceanography MER EHU AZTI‐501330 Synopsis A practical introduction to the wide range of sampling techniques and procedures applicable to operational oceanographic studies. Aims to introduce the students to the wide range of sampling techniques applicable to operational oceanography Objectives At the end of the Unit, you should: 1. have gained knowledge in the different sampling techniques and data analysis Key Skills Acquired At the end of the Unit, you should be able to: 1. 2. Generic: Small groups' boatwork and laboratory practical programme. Individual ~ assessment of data quality, presentation of written reports, library information retrieval and critical analysis of literature. Subject‐based: Boatwork and practical laboratory skills in operational oceanography Syllabus The following issues are addressed: Oceanographic instrumentation and sampling techniques (CTD, Sediment grabs and cores, etc.) State of the art instrumentation in fish biology surveys (acoustic surveys, plankton samplers, etc.) Physical instrumentation and data analysis (currents, tides and waves) Geophysical sampling tools and data analysis (multibeam, side scan sonar, etc.) Learning & Teaching Exercises: 8 hr Laboratory practicals: 8 hr Computer practicals: 8 hr Field trip: 6 hr Tutorials: 4 hr Seminars: 6 hr Coordinator A Uriarte (AZTI) Other teaching staff M González (AZTI) Other AZTI staff Semester 2 Timetable slot To be advised ECTS 4 Level Optional Bibliography Delivered during the course Assessment Practicals notebook will be marked Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. 35 36 MERConsortium: SOTON,UBx, ULg, EHU MarinePrimaryProduction MER EHU IEO‐501325 Synopsis This unit extends upon the principles and methods of Primary Production in the Oceans, with particular reference to Remote Sensing methods Aims To advance understanding of the abundance of phytoplankton in the ocean using satellite techniques within the context of large‐scale distributions and low‐ frequency fluctuations. Objectives At the end of the Unit, you should: 1. Understand the present developments in Primary Production in the fields of Remote Sensing, Global analysis and Climate variability. Key Skills Acquired 1. General skills: critical analysis and interpretation skills, use of web resources, working in groups, presentation of written and oral scientific reports Syllabus This Unit extends upon the principles and methods of Primary Production in the Oceans, with particular reference to the Remote Sensing methods and the Regional Oceanography of the Bay of Biscay. It also covers different aspects of the distribution of the primary producers in the major bio‐geographical Biomes (Polar, Westerlies and Trades) and bio‐geographical Provinces of the Atlantic Ocean. It finally addresses the role of Climatic and Large‐scale variability on the distribution and abundance of phytoplankton. Learning & Teaching Lectures and seminars: 20 hr Practical group assignments (3) on the following topics: o Satellite‐observed phytoplankton distribution in the Bay of Biscay, following the Prestige oil spill; o Phytoplankton blooms in the Bay of Biscay from satellite and Ships of Opportunity measurements (Ferry, Pride of Bilbao); and o Phytoplankton variability during El Niño and La Niña events, using Remote Sensing. Field visit to a Satellite Station and to a C14 laboratory During summer 1 student from this Course may be offered to carry out research work during 2 months(sandwich student) in the Oceanographic Centre of IEO at Santander or in PIE‐UPV/EHU. Coordinator C García Soto Other teaching staff To be determined Semester 2 Timetable slot To be advised ECTS 4 Level Optional Bibliography Delivered during the course Assessment Written examination (50%) Oral presentation of Coursework (40%) Field visit assessment (10%) Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. EuropeanMaster of Science in Marine EnvironmentandResources SatelliteOceanographyand Meteorology MER EHU 501346 Synopsis Satellite oceanography: sea surface temperature, ocean color, altimetry , imaging radars. Meteorology: radiation propagation through the atmosphere , atmospheric (thermo)dynamics , atmosphere‐ocean coupling, satellite meteorology and climate Aims To understand the present developments in the fields of Satellite Oceanography and Meteorology Objectives At the end of the Unit, you should: 1. Analyze data from satellite oceanography and meteorology for different applications with emphasis on climate Key Skills Acquired 1. Critical analysis and interpretation 2. Use of numerical tools (R and other languages) for data analysis 3. Use of web resources 4. Working in groups 5. Presentation of written and oral scientific reports Programme PART 1 SATELLITE OCEANOGRAPHY 1. Sea Surface Temperature: Global warming and ENSO. 2. Ocean colour: Harmful algae blooms and other phytoplankton blooms. 3. Altimetry: Sea level rise, currents and eddies. 4. Imaging radars: Oil spills and other applications PART 2 METEOROLOGY 5. Propagation of radiation through the atmosphere for satellite applications 6. Atmospheric thermodynamics and dynamics 7. Atmosphere‐ocean coupling 8. Satellite meteorology and climate Learning & Teaching Lectures: 16 hr Exercises: 8 hr Computer sessions: 16 hr Coordinator C Garcia Soto (IEO) J Saenz Other teaching staff To be determined Semester 2 Timetable slot To be advised ECTS 4 Level Optional Bibliography Delivered during the course Assessment Completion of practicals (50 %) Oral presentation of coursework (50%) Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. 37 38 MERConsortium: SOTON,UBx, ULg, EHU BiogeochemicalCyclesinthe Ocean MER ULg BIOC07013‐BIOC07021 Synopsis Origins and history of the elements during the formation of the Earth. Total cycles of the major and other elements, their role in productivity and food web structure, their importance in climatic changes. Aims To provide an overview of the biogeochemical cycles in the ocean and how they have governed and govern the Earth system. Objectives At the end of the Unit, you should: understand the principal biogeochemical cycles which govern the Earth system and to acquire the basic concepts for their modelling. understand the origin and the evolution of the principal biogeochemical phenomena which govern the Earth system Key Skills Acquired At the end of the Unit, you should be able to: Undertake basic modelling of biogeochemical cycles Programme 1. 2. 3. 4. 5. 6. 7. Origins of the elements and their history during the formation of the Earth. Description of the large reservoirs and the major biogeochemical phenomena. Global cycles of the major elements intervening in the constitution of the organic matter (C, N, O, P) are analyzed. Concepts of characteristic times and the aspects of modeling of these cycles are also approached. Biogeochemical cycles of other elements (Fe, S), their role in the productivity and the food web structure, their importance in the context of the climatic changes. Importance of the biogeochemical cycles, in the structuring of the ecosystem: case of the Antarctic Ocean Disturbance of the carbon cycle: oceanic acidification. Two practical work days including 1 day at sea. Practical work will take place according to the availabilities of the R.V. Belgica. Learning & Teaching (40 hr Th; 2x10 hr field work) 20 meetings of 2h of theoretical course. Dates to be fixed with the students. Coordinator B Delille Other teaching staff A Mouchet Semester 3 Timetable slot To be advised ECTS 6 Level Optional Requisites: For those students that have already passed "Biogeochemical cycles in the Earth system" in Semester 1 in SOTON, this course is only available as extracurricular course out of the 30 ECTS required in Semester 3 Bibliography Power‐point available to the http://www.co2.ulg.ac.be/st udent/ address Assessment Examination: 75‐50% Written Report: 25‐50% Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the ULg Academic Quality & Standards Committee. EuropeanMaster of Science in Marine EnvironmentandResources Interdisciplinaryaspectsof MarineScience MER ULg OCEA00151‐00201 Synopsis Multidisciplinary view of present problems in marine science. Deciphering the interactions between physical and biogeochemical processes of the marine environment, from small space‐time scales of turbulence up to inter‐annual scales. Aims Acquire an interdisciplinary appreciation of the marine environment. Objectives At the end of the Unit, you should: 1. understand the scales of time and space and their relevance for the interpretation of data in marine science 2. develop an interdisciplinary viewpoint of marine science Key Skills Acquired At the end of the Unit, you should be able to: 1. interpret data of different time‐space sale and time‐space interactions, within a geohydrodynamic and ecohydrodynamic context 2. make personal judgements about the contributions of diverse disciplines of marine science, as well as about multidisciplinar issues Programme 1. Geohydrodynamic context: Scales of time and space and geohydrodynamic equations 2. Geohydrodynamic variability: Internal and external forces 3. Geohydrodynamic spectral windows 4. Ecohydrodynamic adjustment: resonance/adjustment: plankton ecosystems; euphotic layer/mixture layer; resonance processes. 5. Advance modelling of the marine ecosystems 6. Examples where the coupling physics‐biology on various space‐time scales is remarkable: boundary layers, areas of upwelling, large fronts. 7. Current interdisciplinary topics in oceanography Learning & Teaching (30 hr Th; 30 hr Pr) Lectures Seminar conferences Practical sessions Computer sessions Presentation of a subject illustrating the course Coordinators M Grégoire S Djenidi Other teaching staff ULg and Staresso staff Visiting teaching staff Semester 3 Timetable slot To be advised ECTS 6 Level Compulsory (ULg) Bibliography Delivered during the course Assessment Oral examination: 50 % Written report & oral presentation : 50% Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the ULg Academic Quality & Standards Committee. 39 40 MERConsortium: SOTON,UBx, ULg, EHU MarinePlantBiologyandEcology Coordinator B Velimirov A Goffart Other teaching staff A Wilmotte S Gobert M Poulicek Semester 3 Timetable slot To be advised To be advised ECTS 6 Level Optional MER ULg BOTA04011‐ENVT07271 Synopsis Diversity and ecology of the marine primary producers (phytoplankton and macroalgae and phanerogames). Aims To provide an overview of the diversity and ecology of marine plants, the human impact they are subjected to, and the most relevant remedial actions that can be advised to coastal managers. Objectives At the end of the Unit, you should: 1. understand the diversity of the marine primary producers, at a global scale 2. identify the great production systems 3. understand how environmental factors control marine primary production 4. know the human impact on the dynamics of phytoplankton and macroalgae 5. know concepts relevant to advise in coastal water management (emphasis in Mediterranean species and ecosystems). Key Skills Acquired At the end of the Unit, you should be able to: 1. identify major marine plants taxa 2. design an ecological study of marine plant communities 3. provide basic advice to coastal managers Programme 1. Diversity and ecology of the marine primary producers (phytoplankton and macroalgae) 2. Ecology of marine magnioliophytes (formerly named marine phanerogames) which form coastal ecosystems: reproduction, dynamics of carbon, the nutrients, reproduction, protection… Learning & Teaching (30 hr Th; 25 hr Pr; optional 3 d field course) Lectures Seminars: presentation of a recent publication, a congress communication, for discussion with the students. Practical work in laboratory, devoted in particular to the measurement of the pigments phytoplanktonic (chemotaxonomy). Training course at Stareso (Calvi, Corsica) centred on the study of phytoplankton dynamics and macroalgae diversity (Optional; 2nd semester). Bibliography Ppt presentations are available to students. Reference scientific articles. Assessment Oral examination. Preparation of a research project on a given topic. The overall rating is modulated by an appreciation on the work carried out during the training course at Stareso (Calvi, Corsica). Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the ULg Academic Quality & Standards Committee. EuropeanMaster of Science in Marine EnvironmentandResources MarineEcology MER ULg ENVT07261‐07281 Synopsis Foundations of marine ecology. Biodiversity or marine organisms. Sampling techniques in marine ecology. Case studies: posidonia fields, abyssal environments and coral reefs Aims To provide an overview of marine ecology and a detailed view of relevant endangered marine ecosystems, with emphasis on coral reefs. Objectives At the end of the Unit, you should: acquire stable foundations in ecology and to form with the ecological reasoning applied in marine environment. achieve an integrated synthesis of the various facets of the reef world. Key Skills Acquired At the end of the Unit, you should be able to: identify target taxa in marine communities perform sampling in marine ecology be familiar with the tools and procedures to conduct ecological surveys in particular ecosystems Programme 1. 2. 3. 4. 5. 6. 7. Foundations of marine ecology (biomass, production, nutrient cycles, inter‐individual relationships and impact of soil factors on organisms) Description of the biodiversity or marine organisms, Sampling techniques in marine ecology Detailed description of three particular ecosystems: the posidonia field in the Mediterranean Sea (5 hr), coral reefs and abyssal environments (more particularly, hydrothermal vents). Synthesis of reef cnidarians (morphology, biology, systematic, symbiosis, ...). Structure and the operation of coral reefs: paleontological emergence, structure and zonation, geological evolution, zoogeography, animal communities associated the various ecological niches, food web functioning. Socio‐economic outline of and threats to the reefs: tourism impact, global change, bleaching and other pathologies, resources overexploitation,… ). Learning & Teaching (40 hr Th; 10 hr Pr; optional 4 d field course) Lectures Lab sessions (5): devoted primarily to macro and microscopic morphology (1) and systematics (1) of the reef cnidarians, analyses of photographs and films on the structure and the biogeography of the reefs using the software ReefCheck (2) and analyses of quantitative phenomenon of bleaching using the CoralWatch system and software. Work practice: carried out during the Training course (STARES0‐Calvi‐ Corsican) at the oceanographic station of the University. Period May‐ June. Coordinator S Gobert Other teaching staff M Poulicek Semester 1 Timetable slot To be advised ECTS 6 Level Optional Bibliography Ppt presentation with lectures available to students. Syllabus and CD‐Rom with the PowerPoint files and a copy of the software used at the time of the TP (ReefCheck and CoralWatch) available to students Assessment Marine ecology (60%): Oral examination with open book (two questions) vis‐a‐vis the two teachers, after preparation (50‐75%) Written report (25‐50%) Reef world (40%): Oral examination on coral reefs: 1 theoretical question (40%), 1 slide to be commented on (40%) and 1 “object” to identify and put in perspective, within its context (20%) Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the ULg Academic Quality & Standards Committee. 41 42 MERConsortium: SOTON,UBx, ULg, EHU Coordinator A Goffart Other teaching staff M Elskens M Grégoire Semester 3 Timetable slot To be advised ECTS 6 Level Optional MarineNutrientDynamicsand EcosystemModelling MER ULg OCEA00251/2‐00181 Synopsis Marine nutrient dynamics: chemical, biogeochemical and ecological aspects. Conceptualization, parameterization and implementation of mathematical models of the marine biogeochemical processes Aims To provide an introduction to marine nutrient chemical, biogeochemical and ecological aspects and to biogeochemical modelling. Objectives At the end of the Unit, you should: 1. 2. 3. 4. Acquire the theoretical concepts for the study of dynamics of the nutrients in the marine environment Understand the control of nutritive salts dynamics in the ocean by the ecological processes. Understand the control of the seasonal evolution of the phytoplankton communities by the nutritive salts dynamics in non‐disturbed environments (example of Bay of Calvi, Corsica). Know the impact of anthropogenic activities and climatic change on the availability out of nutritive salts and plankton biodiversity, including the toxic or harmful species. Key Skills Acquired At the end of the Unit, you should be able to: 1. 2. Assist the integrated management of the marine coastal environment in relation to the European regulations (e.g. Water Framework Directive) Conceptualize, parameterize and implement mathematical models of marine biogeochemical processes. Programme 1. 2. 3. 4. 5. 6. 7. 8. Biogeochemical aspects associated with the study with nutrient dynamics in the marine environment. New and regenerated production. Analytical techniques: concentrations and flow of nutrients in the water column. Use of stable and/or radioactive isotopes. Case study: the cycle of nitrogen. Chemical metrology and standards for quality control. Validation of analytical techniques (international regulations into force). Dynamics of nutritive salts in the marine environment: physical constraints and ecological processes which control matter flows in the oceans. Concepts, parameterization and implementation of mathematical models of the marine biogeochemical processes. Mathematical formulation of the terms of ecological interactions and rates of chemical reactions. Impact of the physical environment on the formulation of these terms. Model parameterization, calibration and validation. Types and use of models (e.g. physiological, biomass and assessment models). Practical work: construct and implement very simple biological models (2 to 3 variables in a 0D or 1D environment) Learning & Teaching (30 hr Th; 30 hr Pr; optional 4 d in field course) Lectures. Practical work: ecological processes ‐may take place in Corsica (Calvi) Practical exercises: implementation of very simple mathematical and/or in the Liege laboratory models. Bibliography There are not published notes of course, but the students will have a copy of transparencies and scientific articles or reference works illustrating the taught theoretical concepts Assessment Written examination (with course notes): 25% Oral examination (discussion without course notes): 10% Oral examination on field work: 35% Written report: 30% The students are invited to propose subjects of discussion which interest them particularly. Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the ULg Academic Quality & Standards Committee. EuropeanMaster of Science in Marine EnvironmentandResources RemoteSensingoftheOceans Coordinator Y Cornet Other teaching staff To be determined Semester 3 Timetable slot To be advised ECTS 6 Level Optional MER ULg OCEA00031‐00041 Synopsis Information given by the remote sensing images. Treatments of remote sensing images. Image processing software. Data processing of complete sequences of satellite images. Bio‐geo‐ physical parameters given by remote sensing images. Aims To provide advanced knowledge and training in remote sensing of the oceans. Objectives At the end of the Unit, you should: 1. 2. 3. 1. Requisites: For those students that have already passed "Introductory Remote Sensing of the Oceans " in Semester 1 in SOTON, this course is only available as extracurricular course out of the 30 ECTS required in Semester 3 Understand the process of acquisition and the nature of information of the remote sensing images Know the principal types of treatments applied to remote sensing images. Acquire expertise in the functionalities of image processing, by means of typical software tools. Key Skills Acquired At the end of the Unit, you should be able to: Bibliography process, analyze and interpret satellite data by applying specific software Programme 1. 2. 3. 4. 5. 6. 7. Introduction: vector analysis, signal nature, concepts of digital imaging Monogenic image processing: visualization, contrast enhancement, a spectral band sorting, focal/zonal/global treatments, spatial filtering of images, geometrical corrections, radiometric corrections Polygenic image processing: visualization (color compositions), arithmetic indices and operators, polygenic transformations, image sorting, multi‐source analysis Specific issues: low resolution imagery, satellite imagery and modelling in oceanography (bathymetric modelling, SST, chlorophyll concentration, classification of sea‐beds) Data processing of complete sequences of satellite images (low space resolution and low performance level) to extract bio‐geo‐ physical parameters from image data. Optional module 1 ‐ Principles of imagery radar. Optional module 2 ‐ Introduction to satellite photogrammetric methods. Ppt and Word documents and extracts of publications/books. Numerical slides available as pdf and downloadable on ftp site of the Geomatic Unit. Assessment Questionnaire (theory): 50% 100 standard questions are distributed to the students at the beginning of course. Written examination, with open book: 50% Resolve an exercise by means of a software used during the practical sessions Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the ULg Academic Quality & Standards Committee. Learning & Teaching Formal Lectures: 30 hr Practical work: 30 hr 43 44 MERConsortium: SOTON,UBx, ULg, EHU EuropeanMaster of Science in Marine EnvironmentandResources 45 MODULE3 SCIENTIFICCHALLENGES& OPPORTUNITIES: MER MARINEENVIRONMENTPROTECTION &RESOURCESEXPLOITATION MODULE 3.‐SCIENTIFIC CHALLENGES& OPPORTUNITIES: MARINEENVIRONMENT PROTECTION&RESOURCES EXPLOITATION COURSE Advanced Instrumental Analysis Cellular and Molecular Biomarkers (E) Degradation and Rehabilitation of Estuarine Ecosystems (E) Ecological Quality Assessment in Coastal Ecosystems (E) Ecotoxicity Bioassays in Aquatic Risk Assessment (E) Environmental Analytical Chemistry (E) Environmental Genomics (E) Eutrophication and Harmful Algae (E) Fish and Shellfish Parasitology Fish and Shellfish Reproduction and Endocrinology Fish Welfare and Seafood Quality Histology and Histopathology of Aquatic Animals Marine Molecular Biology and Biotechnology Molecular Population Genetics of Fish and Shellfish (R) Physiological Energetics of Marine Organisms Advanced Marine Zoology (E) Biochemistry, Physiology and Production of Marine Animals (R) Ecotoxicology and Biodegradation of Marine Pollutants (E) Threats to Marine Mammals (E) Functional and Molecular Marine Microbiology (R) TYPE ECTS UNIV OP 4 EHU OP 6 ULg 46 MERConsortium: SOTON,UBx, ULg, EHU AdvancedInstrumentalAnalysis MER EHU 501323 Synopsis The most outstanding instrumental methods for trace analysis in environmental samples will be provided. Essentially, the basics and the applications of mass spectrometry to the elemental and molecular analysis and liquid chromatography and gas chromatography will be covered, together with the suitable sample preparation procedures. Aims To provide exposure to the most outstanding instrumental methods for trace analysis in environmental samples. Objectives At the end of the Unit, you should: 1. understand the basics of mass spectrometry 2. be able to design the steps and the requirements of an instrumental method of analysis to fulfill the quality requirements 3. understand the basics of advanced chromatographic methods Key Skills Acquired At the end of this Unit, you should understand: 1. the key points of an instrumental trace analysis method 2. good analytical practices Syllabus Topics covered include: Sample preparation methods for trace analysis Basics on mass spectrometry ICP‐MS methods for elemental trace analysis. Isotopic dilution method. Analysis of micro‐organic contaminants by liquid or gas chromatography Learning & Teaching Lectures: 20 hr Seminars (for case studies and applications): 10 hr Laboratory work: 10 hr Coordinator O Zuloaga Other teaching staff G Arana Semester 2 Timetable slot To be advised ECTS 4 Level Optional Bibliography E. Hoffmann. 2008. Mass spectrometry: principles and applications, John Wiley & Sons, Chichester, UK. V.R. Meyer. 2010. Practical high‐ performance liquid chromatography. John Wiley & Sons, Chichester, UK. D. Rood. 2007. The troubleshooting and maintenance guide for gas chromatographers. Wiley‐VCH, Weinheim, Germany S. Mitra (Ed.). 2003. Sample preparation techniques in analytical chemistry. Wiley‐ Interscience, Hoboken, New Jersey Assessment Written theory examination (40%) Laboratory work and report (20%) Case study and oral presentation (40) Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. EuropeanMaster of Science in Marine EnvironmentandResources CellularandMolecular Biomarkers Coordinators MP Cajaraville A Orbea Other teaching staff To be determined Semester 2 Timetable slot To be advised ECTS 4 Level Optional MER EHU 501316 Synopsis Directed at students aiming to specialize in environmental toxicology, with a focus on cell and molecular biology. Global/updated view of environmental problems and the use of cell/molecular responses as early warning signals (biomarkers) of ecosystem health in pollution assessment. Aims • To provide a global/updated view of environmental toxicology and the use of cell/molecular responses as early warning signals (biomarkers) of ecosystem health in pollution assessment. Learning & Teaching Objectives At the end of the Unit, you should: 1. 2. 3. 4. 5. 6. Understand the mechanisms of action incorporation into cells, as well as the cellular strategies to detoxify and/or sequester physiological metals at toxic concentrations and xenobiotic metals, depending on the characteristics and speciation of metals. Understand the cellular and molecular responses to pollution by organic xenobiotics, including their biotransformation, involvement in oxyradical generation, and mechanisms and strategies of cellular and molecular adaptation. Understand the cellular and molecular pathways that lead to toxicant‐caused genotoxic and non‐genotoxic DNA and chromosomal damage, including repair mechanisms, and further development of preneoplastic and neoplastic diseases. Understand the importance of pollutant effects on cell signalling and homeostasis of the endocrine system, with emphasis in ecologically‐relevant effects on reproduction. Understand the implications of the changes at cellular and molecular level, in the general health condition of the individuals and the natural populations, with the aim of achieving a reasonable and sustainable exploitation of natural resources. Understand the rationale for the use of cellular and molecular responses to pollutants in environmental monitoring and in environmental risk assessment, including the limitations and challenges of the approach. Role of emerging toxico‐ genomics and proteomics in new biomarker discovery. Be aware of the relevance of the cellular and molecular mechanisms of accumulation/detoxification of metal and organic xenobiotics, in relation to the diagnosis of toxic levels relevant to Human Health (Environmental Health, Public Health, …) and in Environmental Health Sciences (biomonitoring, biological effects assessment, ecosystem health, environmental risk assessment…) Assessment • Attendance is compulsory. All absences must be justified documentally. Active participation in the activities of the course is required; particular attention will be paid to the participation in open discussions in lectures, seminars and practicals. • 2. 3. 4. 5. 6. 7. 8. 9. 10. 11. Introduction to cellular and molecular biomarkers of pollution: examples and applications in monitoring programmes. Biomarkers and bioassays for endocrine disrupting environmental pollutants. Techniques to measure cell and molecular biomarkers. Toxicity of metallic pollutants, in relation to cellular accumulation and storage processes. In vitro alternative methods in biomarker development: potential of mussel cells primary cultures for toxicity testing of environmental pollutants. Generation of oxyradicals and oxidative stress in marine organisms. Mechanisms of pollutant‐induced peroxisome proliferation and rationale, for use as a biomarker in environmental pollution assessment. Biotransformation of organic xenobiotics. Lysosomal perturbations as indicators for toxically‐induced cell damage. Biomarkers for assessment of toxicant‐caused DNA damage. Challenges for use of biomarkers in environmental monitoring and risk assessment. PRACTICALS: Biomarkers of exposure to metals. Assessment of peroxisome proliferation. Lysosomal biomarkers. Genotoxicity assessment. SEMINARS: Application of biomarkers to case studies. Personal report: Based on one research article, presenting a case study on biomarker use. It will be presented in a seminar by each student (15 min). Programme 1. Lectures: 20 hr Seminars: 4,5 hr Lab practicals: 13 hr Computer practicals: 2 hr Bibliography Delivered during the course Key Skills Acquired At the end of the Unit, you should: 1. • Notebook of practicals, where the student has made his/her own observations, must be presented in order to assess the progress achieved in practicals. Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. 47 48 MERConsortium: SOTON,UBx, ULg, EHU DegradationandRehabilitation ofEstuarineEcosystems MER EHU 501319 Synopsis Introduction to estuaries. Uses of estuaries. Human impact assessment: physical perturbation and pollution, and their effects. Management: status assessment and monitoring. Aims • To provide an introduction to the chemistry of sea‐water through qualitative and quantitative approaches and presentation of the chemical interactions between the lithosphere, the biosphere, the atmosphere and the ocean. Objectives At the end of the Unit, you should: 1. 2. 3. understand the basic concepts of estuarine ecology, and the main differences between estuaries identify the important functions of estuaries, including benefits to humans, the factors that affect estuarine health and the actions that can be taken to improve the health of estuaries have gained knowledge of the procedures and tools to assess the health of estuaries, and monitoring changes in abiotic and biotic conditions. Key Skills Acquired At the end of the Unit, you should be able to: 1. 2. 3. 4. access scientific and institutional information (paper and online literature) achieve written reporting, oral presentation and discussion achieve in situ recording of environmental data in water and sediments apply data treatment methods Programme 1. The estuarine ecosystem: Definition. Limits. Geomorphologic types. Classifications based on salinity, tides and energy. Functional components. Circulation of materials. Biodiversity. 2. Habitats and communities: Pelagic habitats and plankton communities. Benthic habitats and communities. Associated subsystems. Nekton. Birds. 3. Socioeconomic values and uses: Natural resources. Urbanization, industry and commerce. Tourism and recreation. Other activities. 4. Human impact: Physical changes and habitat loss. Pollution: enrichment, unhealthiness and toxins. Overharvest and overfishing. Introduction of exotic species. 5. Bases for estuarine management: Definition and goals. Social and scientific visions. Status assessment. Conservation. Recovery: cleaning, restoration and rehabilitation. Monitoring. Practical works 1. Technical report: Sessions of literature review and oral presentation, reporting environmental and biological characteristics, main resources and uses, major problems and possible solutions for a particular estuary. 2. Field studies: Boat work recording environmental data, to identify particular environmental problems in a humanised system: the estuary of Bilbao 3. Fieldwork to recognize natural and recreational values in a well conserved system: the estuary of Urdaibai 4. Seminar 1: Oral presentation. 5. Computer data treatment 6. Seminar 2: Discussion of field results, and conclusions. Coordinator F Villate Other teaching staff I Uriarte A Iriarte Semester 2 Timetable slot June ECTS 4 Level Optional Learning & Teaching • Formal Lectures: 16 hr • Sessions (literature data search and reporting): 10 hr • Boat work (recording environmental data): 10 hr • Computer session (field data treatment and interpretation): 4 hr Bibliography Delivered during the course Assessment Oral presentation and written report (60%) Fieldwork 1 (20%) Fieldwork 2: (20%) Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. EuropeanMaster of Science in Marine EnvironmentandResources EcologicalQualityAssessmentin CoastalEcosystems Coordinator I Saiz Salinas J Franco (AZTI) Other teaching staff JM Gorostiaga A Martínez de Murgia (OFG) A Borja (AZTI) Semester 2 Timetable slot To be advised ECTS 4 Level Optional MER EHU 501318 Synopsis Marine diversity as a tool in environmental quality assessment and its value for protection of endangered ecosystems and for environmental monitoring and assessment programs in the framework of regulatory directives (EU Water Framework Directive, etc.). Aims • • • • • To be aware that marine diversity is a precious treasure to preserve in conservation programmes and a key variable to assess environmental quality in endangered ecosystems. To introduce the basic concepts used in marine ecological quality assessment. To provide a basic knowledge on the Water Framework Directive and other legislative references and their implications for the marine quality assessment To provide the methods for the integrative ecological assessment of marine quality To present some practical cases dealing with the integrative ecological assessment of marine quality Objectives At the end of the Unit, you should: 1. 2. 3. 4. 5. 6. recognize characteristic taxa of algae, invertebrates and fishes from coastal ecosystems. assess environmental quality, by using different diversity measures. design and analyse monitoring programmes for algae and animals have a good knowledge of the main legislative references in relation to the assessment of the quality of the marine environment, especially the Water Framework Directive. interpret the data from monitoring programs design monitoring programs for the assessment of the quality of the marine environment Key Skills Acquired 1. Generic skills: report writing, scientific writing, working in teams, oral presentations, library information retrieval and critical analysis of literature, presentation and manipulation of data (e.g. water quality data interpretation biological data interpretation), ability in integrative interpretation of data. Programme PART 1. BIODIVERSITY ASSESSMENT & MONITORING 1. Richness of diversity based on algae, invertebrates and fishes from coastal ecosystems. 2. How to sample, undertake surveys and perform floristic and faunistic analyses to: (a) measure diversity; (b) select appropriate bioindicators of environmental state; and (c) assess environmental quality in many endangered habitats. 3. Temporal dimension in the design and analysis of efficient monitoring programmes, to evaluate ecological recovery, once correction measures have been implemented by environmental managers. 4. Role of Aquaria in education programmes and conservation of target species. Field trip 1. Floristic and faunistic survey Field trip 2. Visit to Aquarium Donostia PART 2. INTEGRATIVE ASSESMENT OF MARINE ENVIRONMENTAL QUALITY 1. 2. 3. 4. Theoretical and practical basis for an integrative assessment of the marine quality. Basic conceptual issues on the marine quality assessment and its relationship with the general features and some peculiarities of the marine environment will be presented. The Water Framework Directive (WFD) and its implications for the marine quality assessment in EU will be presented. Framework for Community action in the field of water policy. Concepts, objectives, requirements and implementation phases of the WFD. Other important legislative references e.g., European Marine Strategy Directive. Relevant aspects of general marine monitoring programs: ongoing projects and case studies. Practical: Marine environmental quality indices Field trip: Visit to AZTI, Pasaia Learning & Teaching • Formal & Audiovisual Lectures: 18 hr 6 (Part 1) & 12 (Part 2) • • • • Computer practicals: 7 hr Part 1 Fild trip (½ day): 4 hr Part 2 Fild trip (1 day): 8 hr Visit to Aquarium (OFG): 3 hr Bibliography Delivered during the course Assessment • Written report (70%) • Lecture attendance (15%) • Field trips assessment (15%) Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. 49 50 MERConsortium: SOTON,UBx, ULg, EHU EcotoxicityBioassaysinAquatic RiskAssessment MER EHU 501317 Synopsis Introduction to Ecotoxicology. Bioassays in Environmental Risk Assessment: European Water Framework Directive and management of aquatic systems. Aims To develop the abilities that enable suitable study design of ecotoxicology in environmental risk assessment To provide the criteria useful for analysing and interpretation of toxicity and bioaccumulation data Objectives At the end of the Unit, you should: 1. 2. 3. identify the main questions that can be addressed by the use of bioassays know the advanced methods for the determination of ecotoxicity of contaminated water and sediments understand the role of toxicity testing into an integrative risk assessment of the aquatic ecosystems Key Skills Acquired At the end of the Unit, you should be able to: 1. 2. face problem analysis in an aquatic environment related to risk assessment achieve clear expression (oral or written) of conclusions from results derived from bioassays Programme 1. 2. 3. 4. 5. 6. 7. Introduction: Information provided by ecotoxicology to an integrated assessment of ecological effects of chemical substances in the aquatic environment. The European Water Framework Directive. Experimental design for the evaluation of ecotoxic effects in the aquatic systems. Factors controlling ecotoxicity in the organisms. Effects of toxic substances. Parameters to describe acute and chronic responses. Sampling methods: The importance of pilot studies. Case studies. Bioassays: Concepts and advanced methods for the evaluation of ecotoxicity of chemical substances. Realism vs standardization. Quality control/Quality assurance. Case studies: Assessment and management of (a) Industrial effluents; (b) Polluted sediments; and (c) Labelling of new substances . Practical 1: Acute toxicity test. Bioaccumulation. Bioassays and methods for assessing bioaccumulation in the biota Weight‐of‐evidence and statistical approaches. Practical 2.Analysis of a data base for evaluation of ecotoxicological risk assessment Decision making for management and conservation of aquatic systems. .Learning & Teaching • Lectures and Practicals (30 hr) • Field tryp (1 d) (30 sessions of 60 minutes each, organized into 6 formal Lectures plus a one‐day duration trip) Coordinator P Rodriguez Other teaching staff M Martínez-Madrid Semester 2 Timetable slot To be advised ECTS 4 Level Optional Bibliography Delivered during the course Assessment Written examination 30 % Oral examination 20 % Practical examination : 50% Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. EuropeanMaster of Science in Marine EnvironmentandResources EnvironmentalAnalytical Chemistry Coordinator N Etxebarria Other teaching staff A Vallejo Semester 2 Timetable slot To be advised ECTS 4 Level Optional MER EHU 501321 Synopsis Integrative view of the analytical methodologies in environmental issues. We will emphasize the sampling strategies, both active and passive methodologies, and the interpretation of analytical data. The concepts of bioaccumulation and bioavailability will be introduced. Aims To provide an integrative view of the analytical methodologies, in environmental issues. Objectives At the end of this Unit, you should: 1. understand the basic processes of an analytical method 2. be able to design efficiently a sampling procedure 3. understand the chemical outputs of the analytical results 4. understand the bioaccumulation and bioavailability of contaminants in the trophic chain. Key skills acquired At the end of this Unit, you should understand: 1. the analytical approach to environmental issues 2. good analytical practices Syllabus Topics covered include: Basics on environmental analytical chemistry The analytical procedure Sampling techniques The fate and the distribution of contaminants Bioaccumulation and bioavailability Learning & Teaching Lectures: 20 hr Seminars (for case studies) : 6 hr Laboratory work: 8 hr Tutorials (exercises and presentations): 6 hr Bibliography C. Zhang. 2007. Fundamentals of environmental sampling and analysis, John Wiley & Sons, New Jersey, USA. M. Radojevic, V. N. Bashkin. 2006. Practical environmental analysis. RSC Publ. Cambridge, UK J.R. Dean. 2007. Bioavailability, bioaccessibility and mobility of environmental contaminants, John Wiley & Sons, Chichester, UK. Assessment Written theory examination (40%) Laboratory work and report (20%) Case study and oral presentation (40%) Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator 51 52 MERConsortium: SOTON,UBx, ULg, EHU EnvironmentalGenomics Coordinator I Cancio Other teaching staff E Bilbao To be determined Semester 2 Timetable slot To be advised ECTS 4 Level Optional MER EHU 501347 Synopsis Environmental genomics, with emphasis on transcriptomic studies in environmentally‐relevant non‐model organisms. Application of genomic technology to environmental resources management or ecosystem health assessment. Aims To provide basic notions, with the use of practical examples, that will explain the principal techniques used in environmental genomics, in ecotoxicogenomics and in clinic toxicogenomics. Objectives At the end of the Unit, you should: 1. 2. 3. 4. detect/interpret molecularly and mechanistically the adaptation events that living organisms trigger to obtain homeostasis in disease; reproduction; toxicity, feeding regimes and in a changing environment. determine the action mechanisms of different chemical compounds, on different cell functional pathways and structures. understand the usefulness of using transcriptional profiles in the evaluation of the quality of the environment and its application in pollution biomonitoring programs. learn the diagnostic usefulness of the ecotoxicogenomic approach in the determination of the ethiology of diverse pathologies and toxicopathies, in animals. Key Skills Acquired At the end of the Unit, you should be able to: 1. 2. master the technology, tools and information required for the planning, development and interpretation of high‐throughput genomic and transcriptomic studies. know how to design a research project based upon the study of gene transcription profiles diagnostic of exposure to and/or effect of chemical compounds in laboratory and real field/environmental conditions: selection of sentinel species, sequence information retrieval; traditional and massively parallel sequencing techniques; gene expression analysis techniques; and analysis of gene pathways. Learning & Teaching Lectures: 24 hr Seminars: 12 hr personal work Lab Practicals: 2 hr Computer Practicals: 8 hr Tutorials: 4 hr Bibliography Relevant papers delivered during the course Web resources delivered during the course Assessment Programme 1. 2. 3. 4. 5. 6. 7. 8. 9. 10. 11. 12. Environmental genomics and gene sources in the seas, soils, rivers, inside metazoa Environmental metagenomics and gene discovery Genomic services for aquaculture, fisheries research, study of fish stock dynamics, agriculture, food supply, comparative physiology... Genomics and environmental model organisms. Marine genomics and patents. Basic concepts in toxicogenomics: ecotoxicogenomics, functional genomics, transcriptomics, proteomics, metabolomics, analysis of gene expression, and gene ontology. Molecular mechanisms in cell toxicity: effects on gene transcription levels. Gene families with predictive capacity in toxicology: inflammation; peroxisome proliferation; mutagenesis; carcinogenesis; teratogenesis; agonists of AhR and other nuclear receptors; metal scavengers; detoxification metabolism; cytotoxicity; apoptosis; and immunosuppression… How to address the lack of basic gene sequence information about the species of interest. Cloning, “expressed sequence tags” (ESTs). “Suppression subtractive hybridisation‐PCR”. Gene sequencing, Genome vs transcriptome sequencing. Massively parallel sequencing techniques. Sequence/Gene annotation (Gene ontology). Basic techniques for the qualitative and quantitative study of differential gene expression (effects of chemical compounds). Toxicological fingerprinting. RT‐PCR, Q‐ RT‐PCR. Northern‐blot, dot‐blot, in situ hybridisation. Differential display PCR. Suppression subtractive hybridisation‐PCR. Microarrays (microchips) and transcriptomics Toxicogenomics vs proteomics vs metabolomics. Systems biology. Knock‐down and transgenic technology and the gene dissection of relevant molecular pathways. Practicals: Navigating through the web in search of gene/genome/metagenome data bases. Gene sequence repositories, Genome sequence repositories (NCBI, ENSEMBL, GOLD). Gene expression repositories (GEO, Arrayexpress). Pathway analysis based on Gene ontology (GoFact, KEGG pathways). Microarray data interpretation and analysis tools. Attendance is compulsory. Proactive participation in the activities, practical and oral sessions, will be considered. Individual report (seminar) including a questionnaire about the course. 3 page abstract (specific subject) that will be made available to lecturers and to all students participating in the course. All students will have to formulate a critical question to each abstract ,that will be also sent to the lecturer. Questions must be answered by all the students/lecturers. Assessment criteria: written report quality, abstract understanding by other students, and rationale at answering the questions raised. Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. EuropeanMaster of Science in Marine EnvironmentandResources EutrophicationandHarmful Algae Coordinator E Orive Other teaching staff A Laza‐Martínez S Seoane Semester 2 Timetable slot To be advised ECTS 4 Level Optional MER EHU 501320 Synopsis Overview of the effects of harmful algae on marine ecosystems and human health. Factors contributing to harmful algal blooms development. Eutrophication and its control. Aims • To provide an introduction to the biology of harmful algae, the methods for their detection and identification and to their relevance for environmental and human health. Objectives At the end of the Unit, you should: 1. understand the biology of harmful algae. 2. be familiar with methods to detect and identify marine phytoplankton. 3. understand the foundations of eutrophication and its consequences for environment and human health. 4. be aware of the factors enhancing eutrophication Key Skills Acquired At the end of the Unit, you should be able to: 1. identify the main groups of harmful algae 2. apply methods to detect and identify harmful algae 3. be conversant on eutrophication and harmful algae Syllabus Topics covered include: 1. Presentation of the different types of harmful microalgae 2. Methods of detection and identification of harmful algae 3. Impact of harmful algal blooms (HABs) on humans, wild fauna and aquaculture 4. Factors triggering harmful algal blooms 5. Eutrophication of estuaries and coastal waters 6. Factors enhancing eutrophication 7. Restoration of eutrophized habitats: case studies Learning & Teaching • Lectures: 12 hr • Seminars (oral presentations): 5 hr • Practical sessions: 12 hr • Field trip ( 1 day): 6 hr • Tutorials (writing reports): 5 hr Bibliography • • • • Grant, Pitcher & Pillar. 2010. Harmful Algal Blooms in Upwelling Systems. Progress in Oceanography. 85: 1‐136. Glibert, Burkholder, Graneli & Anderson. 2008. HABs and Eutrophication. Harmful Algae. 8: 1‐188. Karlson, Cusack & Bresnan. 2010. Microscopic and Molecular Methods for Quantitative Phytoplankton Analysis. IOC (Intergovernmental Oceanographic Commission of UNESCO). Paris, 110pp. Suthers & Rissik. 2009. Plankton. A guide to their Ecology and Monitoring for Water Quality. Assessment • • • Written report on a case study of eutrophication control (20%) Oral presentation of the ecology and toxic effects of a toxic algae (40%) Written theory examination: a 1 hour written examination paper based on the lectures (40%) Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. 53 54 MERConsortium: SOTON,UBx, ULg, EHU FishandShellfishParasitology MER EHU 501348 Synopsis Biotic interactions between organisms for a better understanding of parasitism origin and evolution. Parasite communities as ecological indicators of environmental quality. Aims To provide an introduction to fish and shellfish parasitology, the relevance of parasites in wildlife, resources and human health and the value of parasitic communities as ecological indicators. Objectives At the end of the Unit, you should: 1. Know the life cycles and interactions with host parasites for the main species inhabiting the temperate waters. 2. know how to use fish parasitological indices, in pollution monitoring and assessment. 3. be aware of the complex interactions between parasites, hosts and the environment 4. understand how (and which) natural factors influence the prevalence, infection intensity and biodiversity of parasites Key Skills Acquired At the end of the Unit, you should be able to: 1. recognise main species of parasites affecting marine fish and shellfish 2. apply ecosystem health indicators based on ecological indicators of parasite communities in host fishes Programme 1. Introduction to endozoans 2. Biodiversity in marine parasites 3. Geographical distribution of main marine parasitic metazoans 4. Life cycles in parasitic metazoans 5. Identification of parasites 6. Natural factors influencing the prevalence, infection intensity and biodiversity of parasites 7. Complex interactions between parasites, hosts and the environment 8. Use of parasites as bioindicators for pollution monitoring 9. Quantitative operational models as a tool for the detection of environmental stress. 10. Integrative assessment: supplementary data Learning & Teaching Lectures: 20 hr Laboratory sessions: 12 hr Computer sessions: 8 hr Coordinator M Ortiz‐Zarragoitia Other teaching staff JM Garcia Estevez (UVIGO) A Perez del Olmo (UAB) Semester 2 Timetable slot To be advised ECTS 4 Level Optional Bibliography Delivered during the course Assessment Attendance is compulsory. Proactive participation in the activities, practical and oral sessions, will be considered. Written examination (50%) Practical examination (50%) Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. EuropeanMaster of Science in Marine EnvironmentandResources FishandShellfishReproduction andEndocrinology MER EHU 501327 Synopsis Fish reproduction, sex determination and differentiation. Endocrinology of marine fish and shellfish. Endocrine and reproductive effects of pollutants. Applications to fisheries, aquaculture and environmental pollution assessment. Aims • • • • To introduce the students to the wide diversity and variability existing in fish reproduction and sexual determination and differentiation processes. To offer to the students basic knowledge on endocrinology of marine fish and shellfish. To show the students the effects of environmental pollutants on endocrine system and reproduction of fish and shellfish To develop skills to estimate reproductive stages in fish and shellfish and understand modern tools on aquaculture of fish and shellfish species. Objectives At the end of the Unit, you should: 1. Understand reproduction strategies in fish 2. Identify reproduction strategies and reproductive gonad stages in fish and shellfish 3. Have gained a knowledge of impact of environmental pollutants on fish and shellfish reproduction and endocrine system, as well as of hormonal regulation in aquaculture. Key Skills Acquired At the end of the Unit, you should be able to: 1. Identify sex and gonad development in fish and shellfish 2. Identify effects of pollutants in reproductive and endocrine system in fish and shellfish Programme 1. 2. 3. 4. 5. 6. Reproduction in the marine environment: Fish and shellfish Reproduction strategies and cycles in fish Sex determination and differentiation in fish Endocrinology of fish Hormones and their function in fish Impact of environmental pollutants on fish reproduction and endocrine system 7. Aquaculture strategies in fish: tools to improve fish reproduction 8. Endocrinology of main marine shellfish groups (crustaceans, molluscs and echinoderms) 8. Hormones in shellfish: participation on reproduction 9. Endocrine disruption on marine invertebrates 10. Shellfish aquaculture: modern tools and techniques Learning & Teaching • • • • • Lectures: 20 hr Seminars: 6 hr Practical sessions (lab): 6 hr Computer practicals: 4 hr Tutorials: 4bhr Coordinator M Ortiz Zarragoitia Other teaching staff U Izagirre H Murua (AZTI) To be determined Semester 2 Timetable slot To be advised ECTS 4 Level Optional Bibliography Delivered during the course Assessment Written examination (100%) Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. 55 56 MERConsortium: SOTON,UBx, ULg, EHU FishWelfareandSeafoodQuality MER EHU 501349 Synopsis The students will get a general overview of the impact of environmental and breeding conditions on the safety/quality of seafood, both in fisheries and in aquaculture. Aims • to provide a general view of the impact of environmental conditions, pollutants, climate change and breeding conditions on the safety, quality and biochemical composition of seafood • to provide knowledge suitable to be applied to farming practices and to seafood safety. Objectives At the end of the unit, you should: 1. 2. 3. know the foundations of fish welfare and seafood safety. understand how diverse factors affect fish wellbeing and seafood safety/quality. know methods and regulations under the legal framework of animal care, seafood safety/quality and human health. Key Skills Acquired At the end of the unit, you should be able to: 1. find relevant information including updates in laws and regulations and Rapid Alert System for Food and Feed (RASFF); actively participate in seminars and discussions; 2. become familiar with the production system and the introduction, control and elimination of undesirable substances from the production chain. Programme 1. Fish welfare and seafood safety: introductory remarks 2. Factors affecting fish wellbeing and seafood safety/quality: fish nutrition; exercise; parasites and pathogens; veterinary treatments; environmental effects; and interactions between pollutants and nutrients 3. Fish wellbeing and seafood safety/quality assessment: analytical tools; legal framework; monitoring fish wellbeing in aquaculture systems; surveillance for seafood safety/quality; and seafood and human health 4. Emerging risks and climate change Learning & Teaching (40 hr; 60 hr personal work) • • • • Lectures Seminars Laboratory sessions Computer sessions • Visit to a fish farm Coordinator I Martínez (CSIC & EHU) Other teaching staff To be determined Semester 2 Timetable slot To be advised ECTS 4 Level Optional Bibliography Delivered during the course Assessment • Attendance is compulsory. Proactive participation in the activities, practical and oral sessions, will be considered. • Written examination (50%) • Practical examination (50%) Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. EuropeanMaster of Science in Marine EnvironmentandResources HistologyandHistopathologyof AquaticAnimals Coordinators I Marigómez M Soto Other teaching staff B Zaldibar U Izagirre L Garmendia To be determined Semester 2 Timetable slot To be advised ECTS 4 Level Optional MER EHU 501324 Synopsis Topics covered will include the description of the normal and pathological histology of marine invertebrates and fish, with special emphasis on the effects of chemical pollutants and other sources of environmental stress. Aims To describe the normal and pathological histology of marine animal species: mainly fishes, molluscs and crustaceans. To Identify histopathological alterations of viral, bacterial, parasitic and toxic (due to pollutant exposure) ethiology To characterise the cellular and molecular mechanisms involved in pathological damage and organismal defence. Objectives At the end of the unit, you should: 1. 2. 3. 4. 5. be familiar with the form and function of organs and tissues in aquatic animals (comparative histology) understand the normal histological organisation of target tissues in molluscs (integument, kidney, blood, digestive gland) understand the normal histological organisation of target tissues in marine fishes (integument, kidney, spleen, blood, liver) recognise major parasites and pathological lesions in molluscs and fish know the value of histopathology in ecosystem health monitoring and marine pollution assessment Bibliography Key Skills Acquired At the end of the unit, you should be able to: 1. 2. 3. 4. conduct histological processing of marine animal tissues identify normal tissues and cell types at the light microscope in marine molluscs and fish identify major parasites and histopathological lesions in marine molluscs and fish search in the web and literature the relevant information concerning molluscs and fish disease, with emphasis in environmentally relevant syndromes Syllabus 1. 2. 3. Lectures: Comparative histology of marine invertebrates. Normal histology of molluscs. Normal histology of fishes. Basic principles in biopathology, histopathology and parasitology. Molluscs: general histopathology, toxicopathology, neoplastic lesions, natural variability and temporal trends in histopathological lesions. Fish: general histopathology, mechanisms of chemical carcinogenesis, carcinogenic lesions. Histopathology in ecosystem health assessment: quantitative histopathology, quality assurance, monitoring programmess Practicals: Histotechnology preparation of samples. Microscopical examination of molluscan tisúes. Microscopical examination of fish tissues. Histopathological examination of marine molluscs. Histopathological examination in fishes. Navigating trough the web in search of data bases and images of aquatic animal histopathology Workshop on toxicological pathology (mini‐symposium) Learning & Teaching Lectures: 20 hr Practical sessions (laboratory): 8 hr Practical sessions (microscopy): 10 hr Practical sessions (computer): 2 hr Pathobiology of marine and estuarine organisms. Couch, JA; Fournie, JW. CRC Press, Boca Raton, Florida, USA, 1993. Fish and shellfish pathology. Ellis, AE. Academic Press. London, UK, 1985. Sistemic fish pathology. Ferguson, HW. Iowa State Univ. Press, 1989. Fish diseases and disorders. Vol 2. Non‐ infectious disorders. Leatherland, JF; Woo PTK. CABI Publ., Oxon, UK, 1995. Fish as sentinels of environmental health. Murchelano, RA. NOAA, US Dept, Commerce, Woods Hole MA, USA,1988. Histopathology atlas of the registry of marine pathology. Murchelano, RA; MacLean, SA. NOAA, US Dept. Commerce, Osford MD, USA, 1990. Fish Pathology. Roberts, RJ. WB Saunders, London, 2001. Fish disease and marine pollution. Vethaak, AD. National Institute for Coastal and Marine Management/RIZK, Amsterdam, 1993. Fish deseases and disorders. Vol 1. Protozoan and metazoan infections. Woo, PTK. CABI Publ., Oxon, UK, 1995. Assessment Attendance is compulsory. Proactive participation in the activities, practical and oral sessions, will be considered. Written report (70%) Practical examination (30%) Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. 57 58 MERConsortium: SOTON,UBx, ULg, EHU MarineMolecularBiologyand Biotechnology MER EHU 501350 Synopsis Recent advances have made it possible to apply a molecular perspective to the exploration of new marine resources and global‐ scale oceanographic questions, involving biogeochemical cycles. Aims • To introduce the basic principles, methodology and applications in marine science of molecular biology tools. • To introduce the fundamental principles in gene organization, function and evolution, and its applications in marine biotechnology. Objectives At the end of the Unit you should: 1. understand the causes underlying genetic change and the relevance in biogeochemical cycles. 2. understand the role of environmental forcing in genetic change. 3. understand the relationship between gene regulation and biogeochemical function. 4. understand and put into practice molecular techniques of application in marine biotechnology. Key Skills At the end of the Unit you should be able to: 1. apply analytical skills for the assessment of the latest oceanographic and marine biotechnology articles that use techniques in molecular biology 2. present and manipulate data for comparing gene and protein sequences, against others, in public databases Syllabus A number of recent advances have made it possible to apply a molecular perspective to the exploration of new marine resources and global‐scale oceanographic questions, involving biogeochemical cycles. In recent years, the application of PCR‐based technologies to oceanographic studies has allowed the identification of previously undistinguishable 'cryptic' species, within important marine 'functional' groups and potential sources of new marine resources. This course will focus upon the molecular mechanisms that are important in maintaining population structure, abundance and resilience of marine organisms. Examples will include primary producers and consumers ‐ representatives of protozoans and metazoans will be used to illustrate the extent of diversity in the marine realm. Lectures will provide an account of our knowledge of molecular evolution integrated at organism and higher levels: population biology, biogeography, ecology, and systematics. Learning & Teaching Formal Lectures: 24 hr Practical sessions: 16 hr Review paper: will develop your literature research skills, written communication and presentation skills. Coordinator To be determined Other teaching staff To be determined Semester 2 Timetable slot To be advised ECTS 4 Level Optional Bibliography Delivered during the course Assessment Written examination (80%) Review paper (20%): a 2000 word review paper on a molecular biology topic with application to marine biotechnological research. Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. EuropeanMaster of Science in Marine EnvironmentandResources MolecularPopulationGeneticsof FishandShellfish (MARINE RESOURCES GENOMICS) MER EHU 501351 Synopsis Molecular population genetics of marine animal and its applications in fisheries, marine farming, conservation management and ecosystem health protection. Aims To provide an introduction to the chemistry of sea‐water, through qualitative and quantitative approaches and presentation of the chemical interactions between the lithosphere, the biosphere, the atmosphere and the ocean. Objectives At the end of the Unit, you should: 1. know the foundations of population genetics. 2. Understand genetic and molecular biological approaches to study population genetics. 3. understand the general principles of the population genetics of marine fish and invertebrates 4. be aware of the potential application of molecular population genetics in the field of marine environment and resources Key Skills Acquired At the end of the Unit, you should be able to: 1. Apply genetic and molecular biological approaches to study the population genetics of marine fish and shellfish Programme 1. Introduction to population genetics 2. Molecular tools in population genetics 3. Fish population genetics. 4. Molecular population genetics of marine animals. 5. Applications: a. fisheries management; b. conservation of genetic variability; c. conservation of biodiversity; d. genetic improvement in fish/shellfish farming; and e. ecosystem health assessment Learning & Teaching - Lectures: 16 hr - Laboratory sessions: 12 hr - Computer sessions: 12 hr Coordinator A Estonba Other teaching staff To be determined Semester 2 Timetable slot To be advised ECTS 4 Level Optional Bibliography Delivered during the course Assessment • Attendance is compulsory. Proactive participation in the activities, practical and oral sessions, will be considered. • Written examination (50%) • Practical examination (50%) Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. 59 60 MERConsortium: SOTON,UBx, ULg, EHU PhysiologicalEnergeticsof MarineOrganisms Coordinator E Navarro Other teaching staff MB Urrutia I Ibarrola Other EHU staff Semester 2 Timetable slot To be advised ECTS 4 Level Optional MER EHU 501322 Synopsis Physiological basis of energetic exchanges between marine animals and environment are analysed. Aims To present the tools that Physiological Energetics provides to understand the basis of energy exchanges and constrains to attain high rates of growth. To present the tools that Physiological Energetics provides to evaluate sublethal effects of pollutants on individual growth and reproductive potential. Objectives At the end of the Unit, you should: 1. be able to handle information Scope For Growth provides as regards to understanding actual growth and factors that may potentially affect growth rate. 2. be able to design simple experiments to measure the scope for growth in marine animals Key Skills Acquired At the end of the Unit, you should be able to: 1. perform critical Analysis of literature data on Scope For Growth. 2. to express (write and analyse) experimental results obtained in the laboratory. 3. design experiments. Syllabus The course is organized into two sections: discussion of general principles of physiological energetics; and two independent and complementary modules developing concepts and methods within the framework of production and toxic effects of pollutant agents. Lectures and laboratory experiments deal with the physiological parameters of the energy balance, such as: rates of food ingestion and absorption; absorption efficiency; metabolic rate; excretion rate; and the resulting scope for growth. Modules on production and pollution follow the pattern of a case study where experimental results are thoroughly discussed. Learning & Teaching Lectures: 20 hr Seminars: 6 hr Practical sessions (laboratory): 10 hr Tutorials: 4 hr Bibliography Galloway, T.S., Sanger, R.C., Smith, K.L., Fillmann, G., Readman, J.W., Ford, T.E., Depledge, M.H. Rapid assessment of marine pollution using multiple biomarkers and chemical immunoassays ,(2002) Environmental Science and Technology, 36 10, 2219‐2226. Widdows, J., Donkin, P., Staff, F.J., Matthiessen, P., Law, R.J., Allen, Y.T., Thain, J.E., (...), Jones, B.R. Measurement of stress effects (scope for growth) and contaminant levels in mussels (Mytilus edulis) collected from the Irish Sea ,(2002) Marine Environmental Research, 53 4, 327‐356. Webb, N.A., Shaw, J.R., Morgan, J., Hogstrand, C., Wood, C.M. Acute and chronic physiological effects of silver exposure in three marine teleosts ,(2001) Aquatic Toxicology, 54 3‐4, 161‐178. Niemi, Gerald J., Bradbury, Steven P., McKim, James M. Use of fish physiology literature for predicting fish acute toxicity syndromes ,(1991) ASTM Special Technical Publication, 1124, 245‐260. Willmer P, Johnston I, (2000) Environmental Physiology of Animals. Blackwell Publishing. Assessment Written examination (60%) Written assay on lab experiments (40%) Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. EuropeanMaster of Science in Marine EnvironmentandResources AdvancedMarineZoology MER ULg ZOO02191/2‐OCEA00431 Synopsis Topics covered will include: the description of the chemistry of sea‐ water; marine biogeochemistry; chemical fluxes form the continent to the ocean; ocean‐atmosphere interactions; oceanic crust‐sea‐ water interactions. Aims To provide an introduction to the chemistry of sea‐water through qualitative and quantitative approaches and presentation of the chemical interactions between the lithosphere, the biosphere, the atmosphere and the ocean. Objectives At the end of the Unit, you should: 1. Acquire a complete picture of the world of non‐planktonic marine invertebrates 2. Identify and localize non‐planktonic marine invertebrates 3. Acquire an outline of biology and diversity of the marine vertebrates. 4. Acquire principles of adaptive behaviour and evolution in fish Key Skills Acquired Fundamentals of marine chemistry and biochemistry Programme 1. Introduction to the marine environment. 2. Marine invertebrates: structural plan and variations within the phylum, larvae and mode of reproduction, locomotion and feeding, ecology. 3. Marine vertebrates: mammals (especially Cetaceans and Pinnipedae), birds, reptiles (especially tortoises), fishes (including economic relevance) 4. Fish ecoethology: evolutionary axes (food, feeding, protection against predators, reproduction, communication). Learning & Teaching Lectures: 40 hr Practical work: 10‐15 hr Visits with the museum of Zoology: 5‐10 hr Training courses (2nd Semester; optional, according to the available sites at the marine station of Wimereux). Coordinator M Poulicek Other teaching staff P Vandewalle P Dauby S Gobert C Michel Semester 3 Timetable slot To be advised ECTS 6 Level Optional Bibliography A syllabus showing the principal information given to the course is available. Collection of the transparencies used for the course distributed at the beginning. Assessment Oral examination (50%) Research project on a given topic (50%) The overall rating may be modulated by an appreciation on the work carried out during the training course at Wimereux. Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the ULg Academic Quality & Standards Committee. 61 62 MERConsortium: SOTON,UBx, ULg, EHU Biochemistry,Physiologyand ProductionofMarineAnimals MER ULg ZOOL02221‐OCEA00291 Synopsis Cellular and molecular aspects of the mechanisms of perception and the adaptations to physical and chemical factors in the marine environment. Marine aquaculture in its socio‐economic and environmental context. Aims To provide a basic knowledge of the cellular and molecular aspects of perception and environmental adaptations in marine animals and its relevance in marine aquaculture and environment. Objectives At the end of the Unit, you should: 1. 2. 3. 4. Acquire, by a cellular and molecular approach, concepts on the mechanisms of perception and adaptations to some physical and chemical factors of the marine environment. Understand the ecological integration of the animal species in the marine environment. Know general principles in marine aquiculture (concept and techniques of bases, diversity,…). Understand marine aquaculture within its socio‐economic and environmental context. Programme 1. 2. 3. 4. 5. 6. 7. 8. Introduction to the biochemistry and physiology of marine animals: constraints imposed by life in the marine environment, physiological and biochemical compensations to the variations in marine environmental factors (conformity, regulation). Physical constraints: temperature, hydrostatic pressure Chemical constraints: salinity, homeostasis, oxygen availability, pollutants. Perception: chemical, physical, photo‐receptors (including bioluminescence). Marine aquiculture: historical, socio‐economic and ecological contexts. Basic techniques in marine aquaculture. Examples of marine aquaculture. Visit to the experimental fish farm unit of Tihange (U Liege). Learning & Teaching (25 hr Th; 35 hr Pr) Lectures and practical illustrations. Teaching "à la carte" in which the student is directly implied. Visit to Tihange: one afternoon. Coordinator A Péqueux Other teaching staff B Frederich P Compère Semester 3 Timetable slot To be advised ECTS 6 Level Optional Bibliography Various booklets as well as articles copies are offered to the students. A copy of the documents presented during lectures (Power‐point presentation) and a syllabus are provided to the students. Assessment Oral examination: 50% Written reports: 50% Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the UB1 Academic Quality & Standards Committee. EuropeanMaster of Science in Marine EnvironmentandResources EcotoxicologyandBiodegradationof Coordinator K Das Other teaching staff M Poulicek Semester 3 Timetable slot To be advised ECTS 6 Level Optional MarinePollutants MER ULg OCEA00221‐00261 Synopsis Impact of pollutants. Bioavailability, bioaccumulation, biomagnification and toxicity. Degradation and metabolisation of micropollutants. Global change and oceans. Biodeterioration. Aims To develop critical thinking to study the biological impact and biodegradability of pollutants in the sea Objectives At the end of the Unit, you should: 1. 2. 3. Understand the threats of chemical pollution to the marine environment, how to assess them and how then can be combated Develop a critical spirit via the study of a fact of topicality, its presentation via the scientific media and its bases. Perceive the complexity of the interactions which affect the microbial world and the opportunities it offers to fight against chemical pollution. Key Skills Acquired At the end of the Unit, you should be able to: 1. 2. 3. critically review studies on the impact of pollutants in marine organisms make an oral presentation of a scientific result. identify opportunities offered by marine microbes, to combat against chemical pollution. Bibliography 2. 3. 4. Introduction to marine ecotoxicology. How to measure the impact of pollutants. Impact on individuals, populations and ecosystems. Classification of pollutants. Trace metals in marine environment. Organic pollutants in marine environment. Degradation and metabolisation of the micropollutants. Global changes and oceans. Case study: Sea of Aral. Modes of biodegradation of “natural” organic molecules in the marine environment. Mathematical models to describe the activity of the microorganisms in “natural” conditions. Modes of biodegradation of “introduced” organic molecules in the marine environment: domestic (detergent) and industrial (aromatic cycles and halogenous molecules) effluents; hydrocarbons; and plastics. Biodeterioration. Case studies: cement, concrete and metallic structures. Learning & Teaching (35 hr Th; 15 hr Pr) Lectures Seminar (oral) prepared by each student and requiring a library search. The set of themes will be imposed by the teacher. Practical work combining one day at sea within the framework of a fishing campaign and the corresponding analyses in the laboratory: written report. Syllabus and collection of copies of all transparencies used distributed at the beginning of the course. The biodegradation part of the course was published by the Presses de L'Institut Océanographique à Paris. Assessment Oral presentation on ecotoxicology (15%) Written work on ecotoxicology (15%) within the framework of a seminar Programme 1. Training course (20%): Practical work will approach a set of issues of mercury contamination in several species of fish and invertebrates of the North Sea. One day of sampling in the North Sea is envisaged on board R.V. Belgium. The mercury concentrations and the isotopic composition of carbon and nitrogen will be used to connect the trophic ecology of these species, to the level of mercury contamination. Oral examination with open book on biodegradation (50%). Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the ULg Academic Quality & Standards Committee. 63 64 MERConsortium: SOTON,UBx, ULg, EHU ThreatstoMarineMammals MER ULg OCEA00412 Synopsis Introduction to the ecology, ecotoxicology and pathology of the marine mammals Aims To provide theoretical and practical viewpoint of the human threats to marine mammals. Objectives At the end of the Unit, you should: 1. know about marine mammals and adaptations to aquatic life. 2. understand human threats for marine mammals. 3. familiarize with the principal causes of mortality and threats for the marine mammals 4. acquire concepts on pathology and veterinary surgery (autopsy). Key Skills Acquired At the end of the Unit, you should be able to: 1. identify human threats for marine mammals. 2. perform basic practice in veterinary surgery (autopsy). 3. perform library search and oral presentation of scientific results Programme 1. General introduction. Ecology. Ecotoxicology. 2. Tracing pollutants in marine mammals(and other vertebrates). 3. Toxicity and pathologies associated to pollution. 4. Pathologies not related to chemical pollution. 5. Autopsies. Learning & Teaching (30 hr Th; 30 hr Pr) The theoretical course consists of a general presentation of the causes of mortality, as well as principal threats, of the marine mammals in general and in the North Sea, in particular. Seminars presented by invited researchers. Written/oral report on a selected topic. Practical work: autopsy room (the student individually carries out the autopsy of an cetacean or a seal) Coordinator K Das Other teaching staff T Jauniaux Semester 3 Timetable slot To be advised ECTS 6 Level Optional Bibliography Delivered during the course Assessment Oral examination including theoretical, practical teaching and personal work (100%) Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the ULg Academic Quality & Standards Committee. EuropeanMaster of Science in Marine EnvironmentandResources FunctionalandMolecularMarine Microbiology Coordinator B Velimirov Other teaching staff A Wilmotte M Poulicek Semester 3 Timetable slot To be advised ECTS 6 Level Optional MER ULg BACT00011‐OCEA00211‐BOTA04011 Synopsis Biodiversity, physiology, ecology and evolution of marine microbes. Molecular techniques to study diversity and ecology in marine microorganisms. Aims To provide an introduction to the chemistry of sea‐water, through qualitative and quantitative approaches and presentation of the chemical interactions between the lithosphere, the biosphere, the atmosphere and the ocean. Objectives At the end of the Unit, you should: 1. Have an integrated picture of the impact of bacteria in oceanic systems. 2. Critically understand the literature related to the diversity of the marine microorganisms. Key Skills Acquired At the end of the Unit, you should be able to: 1. Use molecular techniques to study diversity and ecology in marine microorganisms. Programme 1. 2. 3. 4. 5. 6. 7. 8. 9. Introductory remarks on bacteriology. Biodiversity of the marine micro‐organisms. Technical approaches of harvesting and characterization of the biomasses and the metabolic potentials in water and sediments. Control of bacteria distribution and activities at sea. Cycles of carbon, nitrogen, phosphorus and sulphur and the microbial cycle Bacterial biocenoses (symbiosis: macroinvertebrates in hydrothermal vents and the coral mucus layer and the phenomenon of bleaching). Quantification of bacteria growth in marine systems: theory and methods. Molecular approaches to the diversity of marine microorganisms. Molecular markers diversity at the genetic level and ecological implications(geographical distribution, endemism). Learning & Teaching (30 hr Th; 30 hr Pr) Lectures Seminars Practical work: o o o Methods to measure biomass (epifluorescence UV ...), growth and metabolic activities of mixed bacterial populations Simulation and computation software in microbiology Laboratory exercise on the diversity of marine microorganisms (often cyanobacteria) or presentation of an article Bibliography Syllabus distributed at the beginning of the course. Ppt presentation available to students. Reference scientific articles. Reference work: “Microbial Ecology of the oceans”, D.L. Kirchman, ED. Wiley‐read Inc. Assessment Oral examination (50%) with open book (two questions), after preparation. Presentation of an article (50%) Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the UB1 Academic Quality & Standards Committee. 65 66 MERConsortium: SOTON,UBx, ULg, EHU EuropeanMaster of Science in Marine EnvironmentandResources MODULE4 SOCIO‐ECONOMIC COMMITMENT: MARINEENVIRONMENT ANDRESOURCES MANAGEMENT 67 MER MODULE COURSE 4.‐SOCIO‐ECONOMIC COMMITMENT: International Maritime and Environmental Law Fisheries Socio‐Economics (R) Sustainable Fisheries Management (R) Multicultural Integration in EU OP 7,5 SOTON OP 4 EHU Policies for Marine Environment and Resources Management OP 6 ULg MARINEENVIRONMENT& RESOURCESMANAGEMENT TYPE ECTS UNIV 68 MERConsortium: SOTON,UBx, ULg, EHU InternationalMaritimeand EnvironmentalLaw Coordinator M Tsimplis Other teaching staff A Serdy (Inst Mar Law) Semester 1 or 3 Timetable slot To be advised ECTS 7,5 Level Optional MER SOES 6056 Synopsis This module introduces you to the concepts, legal frameworks and policies concerned with the international law of the sea. Aims To introduce students to the concepts of the international law of the sea. To introduce the legal framework for the management of the seas. To introduce the main international law and policy making institutions. To introduce the students to the legal analysis of international legal instruments. To introduce students to the major international Conventions determining the governance and management of the sea and the global environment. Learning & Teaching (18 hr: 132 hr personal work) • Objectives At the end of the Unit, you should: 1. At a basic level, identify the source and the significance of various treaties. 2. Understand, at a basic level, the process and basic structure of various treaties. 3. Describe, at an intermediate level, the division of rights and responsibilities in respect of the marine areas. 4. Understand and describe, at a basic level, the major arrangements for delimitation of the continental shelf. 5. Understand and describe, at a basic level, the legal framework for fisheries management. 6. Understand and describe, at a basic level, the legal framework for climate change. Key Skills Acquired 1. Generic skills: Time management, critical analysis of research literature, project management, presentation skills 2. Subject‐specific Skills: Basic analysis of legal texts; legal report writing at a basic level. • • Assessment Written Examination (75%) All learning outcomes (1‐6) are tested. Seminar 1: What is international law? How does it differ from national law? How does it affect national law? Who makes it? Who is responsible for upholding it? Customary international law. Seminars 2 and 3: The law of climate change. The Rio Convention and its Protocols. The Kyoto Protocol, emissions trading. What happens after the Kyoto Protocol? Seminar 4: Law of Biodiversity Seminars 5 and 6: The 1982 Law of the Sea Convention. Who has rights on the oceans? Jurisdictional zones: The territorial sea, the continental shelf, the EEZ, the contiguous zone, the high seas. What types of rights exist in respect of navigation, marine research, exploitation of fisheries, exploitation of the sea bed. Seminar 7: Protection of the marine environment. General provisions under the 1982 LOSC. Seminar 8: Delimitation of the jurisdictional zones. Dispute resolution under the 1982 LOSC. Seminar 9: Fisheries management. What are the problems? What does the 1982 LOSC provide? What other fisheries agreements and treaties exist? Seminar 10: UK Marine Policy Written report (25%) A written assessment of 4000 words maximum. Time management, presentation skills, research ability and legal writing are. Learning outcomes 1‐3 and the ability to research further in one of the learning outcomes 4‐6. Syllabus Reading lists will be provided at the beginning of the course, together with a set of materials that will be used. Students are expected to study the relevant materials and the sources included in the reading list, before the seminars. 20 x 45 minute seminars will outline the issues concerned and will discuss in depth specific aspects of the issues under discussion. Non‐assessed essay Students will be asked to write a 1000‐word essay on a selected topic in Week 4. The purpose of the exercise is to help them develop a writing style appropriate for legal/policy reports. The mark of this essay will not count towards the final mark for the course. Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the SOES Academic Quality & Standards Committee. EuropeanMaster of Science in Marine EnvironmentandResources FisheriesSocio‐Economics Coordinator I del Valle I Astorkiza Other teaching staff K Astorkiza To be determined Semester 2 Timetable slot To be advised ECTS 4 Level Optional MER EHU 501328 Synopsis Socio‐economic approach to fisheries problems and potential solutions. Theoretical bio‐economic management models and management instruments (TAC, ITQs). Marine environment related aspects (pollutant spills and resources without markets). Aims To provide an introduction to the basic research techniques in the field: socio‐economic data gathering and interpretation. Objectives At the end of the Unit, you should: 1. become familiar with the basic research techniques in the field: socio economic data gathering and interpretation. 2. Understand problem analysis. 3. develop critical Analysis. Key Skills Acquired At the end of the Unit, you should be able to: 1. learn and link interdisciplinary subjects. 2. Written and Oral Communication. Programme 1. Thinking as an economist 2. Failures and new trends of the Common Fisheries Policy (CFP) 3. Topic I: Right‐based management systems (ITQs) 4. Topic II: Ecosystem‐based approach to fisheries governance (EBA) 5. Topic III: Pollutant spills and damage assessment to non‐ marketed marine resources: Resource Equivalency Analysis (REA) vs. Contingent Valuation Method (CVM) Learning & Teaching Lectures: 20 hr Practicum: 10 hr Seminars: 10 hr Bibliography Delivered during the course Assessment Mixed system of continuous and final assessment, where class attendance is compulsory. Grading is arranged in the following way: Written final examination (50%). It will cover all course materials. The examination should be held no earlier than 15 days after completion of the course. Class presentations in seminars and/or practicum performance (50%) The total final grade is obtained by adding the score achieved in the class tasks to the score achieved on the final exam. Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator 69 70 MERConsortium: SOTON,UBx, ULg, EHU SustainableFisheries Management Coordinator L Motos (AZTI) E Puente (AZTI) Other teaching staff Other AZTI staff Semester 2 Timetable slot To be advised ECTS 4 Level Optional MER EHU AZTI‐0326 Synopsis Topics include fleet and fishery technology, population dynamics, assessment methods, sustainable fishing and management tools and management institutions. Case studies are examined, including the main pelagic and demersal populations exploited by European fleets. Aims To know the scientific basis for a sustainable use of living resources (fleet and fishery technology; population dynamics; assessment methods; sustainable fishing and management tools; and management institutions). To understand the problems concerning the management of fish populations, pelagic and demersal. Objectives At the end of the Unit, you should: 1. be acquainted with the scientific basis for a sustainable use of living resources, including fleet and fishery technology; population dynamics; assessment methods; sustainable fishing and management tools; and management institutions. 2. understand the problems concerning the management of pelagic and demersal populations as exploited by European fleets Key Skills Acquired At the end of the Unit, you should be able to: 1. be familiar with sampling, experimental design, computer skills and research writing. Syllabus Fisheries management foundations. Population biology and dynamics. Demersal fisheries in EU. Pelagic fisheries. Abundance assessment. Assessment campaigns. CPUEs. Fishing technology. Technological transfer, to improve fishing activity. Exploitation patterns. Fishing tools selectivity. Long‐distance fisheries: template and tropical thunids. Newfoundland fisheries. Recruitment: the influence of the environment. Time‐series and process studies. Direct assessment. Plankton responses to climate variability. Influence of climatic and oceanographic variables on the pelagic environment. Fisheries biology. Growth, maturity and fecundity. Parasitism. Other fisheries. Elasmobranchs. Cephalopods. Deep sea fisheries. . Learning & Teaching Lectures: 18 hr Practical sessions: 8 hr Field trip: 4 hr Tutorials: 10 hr Bibliography Dynamics of marine ecosystems. Mann, K.H.; Lazier, J.R.N. Blackwell scientific publications, Boston, 1991. Towards a science of recruitment in fish populations. Cushing, D.H.; Kinne, O. Ecology institute, oldendorf, 1996. Fish populations dynamics. Gulland, J.A. Ed. Wiley, J.& Sons, Chichester, 1978. Why fisheries need to be managed and why technical conservation measures on their own are not enough. Shepherd, J.G.; Lowestof: Ministry of Agriculture, Fisheries and food, Directorate of Fisheries research, 1993. Risk evaluation and biological reference points for fisheries management. Smith, S.J.; Hunt, J.J.; Rivard, D. Ottawa (Canadá): National research council and department of Fisheries and oceans, 1993. Fishing methods, fishing vessel, fishing gear. Hansen, U.J. Danish fisheries technology Institute (Histshals) (Ed. Lit.), 1989. Climate change and northern fish populations. Beamish, R.J. (Ed.), Ottawa: National research council of Canada, 1995. Fisheries biology for everyone. Pensacola: Biology Department, University or West Florida, 1986, Advances in the early life history of fishes. Moser, H.G.; Smith, P.E.; Fuima, Hunter, J.R., lo n. C.H. (ed.), Bulletin or marine science, 1993. Biology of fishes. Bond, C.E. Saunders College Publishing, Philadelphia, 1979. Growth and ecology of fish populations. Weatherley, A.H. Academic Press, London, 1972. Assessment Written examination (50%) Oral presentation of Coursework (40%) Field visit assessment (10%) Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. EuropeanMaster of Science in Marine EnvironmentandResources MutliculturalintegrationinEU MER EHU 501351 Synopsis Academic recognition of certified activities in learning languages, participating in cultural/sport/social or science dissemination activities, cooperation with NGO's, etc. Aims To promote and enhance multicultural integration among students or in the host institutions/countries or at EU level Objectives At the end of the Unit, you should: 1. improve the level of language or cultural/social integration at either local scale in the host institution, or an European scale Key Skills Acquired At the end of the Unit, you should be able to: gain knowledge of any MER MSc Consortium or host country official language, other than mother's language , gain integration as regards different cultural, sport, social or organizational aspects of the host institution/country , perceive intercultural, organizational or cooperation (e.g. with NGO's) links among different European countries in the fields of marine and environmental science and technology or in the areas of education, environmental awareness or research career Learning & Teaching 4 ECTS correspond to approximately 100 hr personal work, provided the activity or activities have been previously recognized by the MER UAB in UPV/EHU and approved by the MER JPB, as stated in the MER Student Agreement, and provided it has been successfully achieved and so certified. Coordinator M Soto N Etxebarria Other teaching staff To be determined Semester 2 Timetable slot ECTS 4 Level Optional Assessment A certificate of achievement is needed Written report: 60% Questionnaire: 40% Course Evaluation Annual assessment by Unit Co‐ordinator. Annual assessment by the MER JPB. 71 72 MERConsortium: SOTON,UBx, ULg, EHU PoliciesforMarineEnvironment andResourcesManagement Coordinator P. Vincent Other teaching staff B Merenne‐Schoumaker Semester 3 Timetable slot To be advised ECTS 6 Level Optional (3 or 6 ECTS)* MER ULg DROI07251‐OCEA00041 Synopsis Law of the sea and the marine environment. Biological stock management of the sea. Economic geography of the sea. Policy of the European Community. Aims To provide an introduction to marine economic geography and to the law of the sea. Objectives At the end of the Unit, you should: 1. 2. Requisites: For those students that have already passed " International Maritime and Environmental Law" in Semester 1 in SOTON *3 ECTS of this course are only available as extracurricular ECTS out of the 30 ECTS required in Semester 3 Know the policies and regulations applicable to the various maritime zones, the exploitation of the resources and the protection of the marine and coastal environments Sensitise with the fact that the economic stakes related to the exploitation of the seas and the oceans are related to marine and coastal management issues. Key Skills Acquired At the end of the Unit, you should be able to: 1. Bibliography Draw up a SWOT analysis of the fishery and/or the aquiculture status in a country/area, or of any other economic valorization. Programme 1. 2. 3. 4. 5. 6. 7. 8. Maritime space: configuration, general management and stakes. Law of the sea: legal statuses applicable to the various maritime zones defined by the international law. Law of the marine environment: major International Conventions aiming at regulating the pollution of maritime spaces. Biological stock management of the sea: major international instruments aiming at regulating fishing. Policy of the European Community: common policies on fisheries, maritime transport and marine environmental protection Exploitation and fisheries stock management. Exploitation and the management of other natural resources (energy resources, water, mineral products of organic origin…) Other economic valorizations (maritime transport and ports, coastal industry, tourism). Coastal zone: management of protected and threatened zones. Learning & Teaching Formal Lectures: 40 hr Practical exercises: 20 hr Basic book: Philippe VINCENT, “Droit de la mer”, Brussels, Larcier, 2008. One original syllabus on marine economic geography (± 100 pages) with statistical and documentary Appendices (± 100 pages). Assessment Oral exam (Law of the Sea): 50 % Written report and oral presentation (Marine Economic Geography): 50% "Pass" mark must be achieved in each of these two evaluation components. Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the ULg Academic Quality & Standards Committee. EuropeanMaster of Science in Marine EnvironmentandResources 73 MODULE5 DATAANALYSIS: INTERPRETATIONOF ENVIRONMENTALDATA MODULE COURSE 5.‐DATAANALYSIS: Environmental Data Analysis (E) Analyses of Environmental Data and Modelling Numerical Methods Applied to the Environment INTERPRETATIONOF ENVIRONMENTALDATA MER TYPE ECTS UNIV OP CBS1 OP 4 6 6 EHU UB1 ULg 74 MERConsortium: SOTON,UBx, ULg, EHU EnvironmentalDataAnalysis Coordinator A de Diego Other teaching staff M Olivares Semester 2 Timetable slot To be advised ECTS 4 Level Optional MER EHU 501352 Synopsis The statistical procedures to interpret large environmental data sets will be provided. First of all, environmental data sets will be considered and data pre‐treatment and data display methods will be explained. Multivariate data analysis will be covered, including discriminant techniques, classification methods and regression analysis. Finally, time series analysis will be outlined. Aims • To understand and apply multivariate approach to interpret the environmental data Objetives At the end of this Unit, you should: 1. use and apply multivariate data analysis methods; and 2. interpret the environmental outcomes from large data sets Key skills acquired At the end of this Unit, you should be able: 1. to apply a multivariate approach to interpret the environmental data Syllabus Topics covered include: Basic statistics Principal component analysis and partial least squares methods Discriminant analysis and classification methods. Analysis of time series Learning & Teaching Lectures: 20 hr Computer work: 15 hr Seminars and tutorials: 5 hr Bibliography G. Hanrahan. 2009. Environmental chemometrics : principles and modern applications. CRC Press, Boca Ratón, USA J. Einax. 1997. Chemometrics in environmental chemistry: statistical methods. Springer‐ Verlag, Berlin, Al. Assessment Written theory examination (40%) Computer work and report (30%) Case study and oral presentation (30) Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. EuropeanMaster of Science in Marine EnvironmentandResources AnalysesofEnvironmentalData andModelling MER UB1 0703 Synopsis Basic methods for the representation, analysis and modelling of environmentally‐relevant data. Aims To provide an introduction to the analysis of environmental data and modelling Objectives At the end of the Unit, you should: 1. understand the principles and methods of descriptive statistics, applied to environmental data. 2. understand the concepts of the principles and methods of variability and trend analyses, applied to environmental data. 3. understand data modelling in environmental sciences. Key Skills Acquired At the end of the Unit, you should be able to: 1. solve problems of descriptive statistics and its application to environmental sciences 2. solve problems of analytical statistics and its application to environmental sciences 3. interpret deterministic and statistical models 4. be familiar with the use of representation basic methods in environmental sciences. Programme 1. Statistics (random variables and probability, data sampling, descriptive statistics, parametric and non‐parametric hypotheses, confidence intervals, etc.) 2. Data analysis (Factor Analyses, automatic classification) 3. Modelling (deterministic modelling, statistical modelling) Learning & Teaching Formal Lectures: 20 hr Seminar: 16 hr Field work: 18 hr Coordinator B Lubac Other teaching staff To be determined Semester 1 Timetable slot To be advised ECTS 6 Level Compulsory (UB1) Bibliography Delivered during the course Assessment Written examination (50%) Practical examination (50%) Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the UB1 Academic Quality & Standards Committee. 75 76 MERConsortium: SOTON,UBx, ULg, EHU NumericalMethodsAppliedto theEnvironment MER ULg MECA00551 Synopsis Tools of numerical resolution adapted to the problems encountered in the quantitative study of the environment. Aims To provide solid mathematical tools to construct and interpret physical and biological models in the marine environment. Objectives At the end of the unit, you should: 1. understand the modelling tools useful for the study of the marine environment. Key Skills Acquired At the end of the unit, you should be able to: 1. work out tools of numerical resolution adapted to the problems encountered in the quantitative study of the environment. 2. work out a digital model for a new problem, while being conscious of the inherent limitations. Syllabus History of modelling, recalls of the basic mathematical concepts, discretization of oceanographic processes, Coriolis, diffusion, eccentric grids, waves of gravity, diagrams of advection, treatment of the pressure, mode‐splitting, Poisson's equations, concepts of nesting, curvilinear coordinates, assimilation of data, adaptive grids Learning & Teaching (30 hr Th; 30 hr Pr) Lectures: 2 hr/wk Making of a tool for simulation for a particular process. This tool will be applied by in particular to analyze the effect of different approaches to the solution of a physical or biological problem. Example: development of a model allowing to study the oscillations of the surface in a lake. Coordinator J Beckers Other teaching staff to be determined Semester 3 Timetable slot To be advised ECTS 6 Level Optional Bibliography The notes of course will be available via WWW in format pdf. Electronic copies of interactive “transparencies” are also deposited there under format pdf. http: /modb.oce.ulg.ac.be/cours/MECA0 55/accueil.html Assessment Written examination (40%) Oral examination (40%) Practical examination (20%) Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the ULg Academic Quality & Standards Committee. EuropeanMaster of Science in Marine EnvironmentandResources 77 MODULE6 DISCOVERY: MARINEENVIRONMENT& RESOURCESRESEARCH MER MODULE COURSE TYPE CSS1/OPSS3 6.‐DISCOVERY:MARINE Contemporary Topics (in Ocean and Earth Sciences) Introduction to Research Activities Research in Marine Environment and Resources Master Thesis ENVIRONMENT& RESOURCESRESEARCH OP C C ECTS UNIV 7,5 4 6 30 SOTON EHU ALL 78 MERConsortium: SOTON,UBx, ULg, EHU ContemporaryTopics MER SOES 6001 Synopsis An opportunity to be guided into the key literature on a variety of important contemporary topics at the forefront of Earth Science, Oceanography, Marine Biology, Marine Science Policy and Law and Marine Environmental and Resource Management. Aims • To provide an opportunity for you to be guided into the key literature on a variety of important contemporary topics at the forefront of Earth Science, Oceanography, Marine Biology, Marine Science Policy and Law and Marine Environmental and Resource Management. Objectives At the end of the Unit you should: 1. synthesise a body of knowledge on a given subject 2. critically assess the scientific literature on a wide range of topics 3. make public oral presentations on the findings of current research 4. write critical syntheses of knowledge for a given subject in a scientifically‐cogent style Key Skills Acquired 1. Written skills 2. Presentation skills 3. Scientific research Syllabus • You will select three key topics from a list of options in your specialist area. • You will be required to write a critical review and make a short oral presentation on each of your selected topics at weekly or fortnightly seminars. • Much of the learning will be through independent reading. The breadth of subject coverage is intended to broaden and deepen your knowledge of topical issues in your specialist area, as well as to develop scientific writing and presentation skills. Learning & Teaching • Seminars will be led by a variety of staff members with expertise in a range of important contemporary topics. • Reading will be guided by staff members, but much of the learning will be through independent reading and study by students, who will also give oral presentations at seminar‐style classes. • The programme will consist of 12 two‐hour seminars. • Supplementary material: Geophysics Seminar, NOCS Seminar programmes and WUN Seminars. A wide range of support can be provided for those students who have further or specific learning and teaching needs. Coordinator J Shepherd Other teaching staff S Gibbs D Iglesias‐Rodriguez A Kemp Semester 1 or 3 Timetable slot To be advised ECTS 7,5 Level Compulsory Semester 1 (Soton) & Optional Semester 3 Bibliography The lecture material is summarised at blackboard.soton.ac.uk. Instructions for accessing this material will be given during the course. Assessment • Written reports (70%): Three reports on a topic which you will be expected to review, identify key scientific issues at stake and summarise arguments on both sides. You will be expected to form your own opinion on the matter. Each report should not be more than 5000 words. Tests Learning Outcomes 1,2,4 • Oral presentations (30%): Three x 15 minute presentations at seminar style gatherings, on a key‐note topic. Tests Learning Outcomes 1,2,3 Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. A full external review by the SOES Academic Quality & Standards Committee. EuropeanMaster of Science in Marine EnvironmentandResources IntroductiontoResearch Activities MER EHU 501314 Synopsis This course provides a look at some aspects related to the scientific and research activities that either have not been expressed before or that are normally overlooked, or even despised, but substantial in the formation of a young researcher. Students are given the opportunity to reflect and elaborate on topics exposed in the Syllabus section below. Aims • To provide an introduction to the scientific and research activities, as a part of the researcher career in Europe. Objectives At the end of this Unit, you should: 1. understand the role of Science and Technology in today’s Society and its development 2. be aware of the importance of good mental resorts to overcome difficulties 3. know the mechanics of scientific presentation and publishing 4. be aware of the opportunities for financing research activities Key skills acquired At the end of this Unit, you should be able to: 1. distinguish and use proven research methodologies 2. show acquaintance of good communications skills, both written and spoken 3. make a decent research project proposal Syllabus Topics covered include: • Science, Technology and Society • Creativity and Problem Solving • Scientific Communication • Theory of Research • Research Funding Learning & Teaching • Lectures: 25 hr • Seminars : 15 hr Coordinator LA Fernández Other teaching staff JM Madariaga Semester 2 Timetable slot ECTS 4 Level Optional Bibliography • INTRODUCCIÓN A LA • • • INVESTIGACIÓN CIENTÍFICA Y TECNOLÓGICA, E. PRIMO YUFERA, ALIANZA EDITORIAL, MADRID, 1.994 TEORIA DEL CONOCIMIENTO, C. HEMPEL, STUDENTLITERATUR, LUND, 1969 WHAT IS THIS THING CALLED SCIENCE, A.F. CHALMERS, THE OPEN UNIVERSITY PRESS, OXFORD, 1978 THE LOGIC OF SCIENTIFC INFERENCE, J, TRUSTED, McMILLAN PRESS, NEW YORK, 1979 Assessment • Written theory examination (50%) • Homework (20%) • Research project proposal (30%) Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. 79 80 MERConsortium: SOTON,UBx, ULg, EHU ResearchinMarineEnvironment andResources MER EHU 501315 Synopsis Annually, a general workshop is held in the facilities of the Aquarium in San Sebastian (OFG), where students from two consecutive academic years share experiences for 2 weeks. Awarded Master Thesis are presented there to an audience that includes students with MSc MER degree (awarded Master Thesis) and those starting the courses of Semester 2. Teaching staff from all the institutions in the MER Consortium and world‐wide renowned marine scientists participating as guest lecturers and examiners, are present. Aims • • • to provide an updated point of view of the main problems in applied marine research; to provide a cross‐section viewpoint of hot spots in RiMER; and to facilitate contacting with renowned scientists/research groups. Objectives At the end of the Unit, you should: 1. understand the current topics in marine environment and resources research; 2. Identify the most active research groups in marine research; and 3. know the main problems that concern applied marine research Key Skills Acquired At the end of the Unit, you should be able to: 1. 2. 3. be familiar with science communication skills; develop a critical way of thinking; and acquire a transversal, multidisciplinary perspective of RiMER Syllabus 1. 2. 3. 4. 5. 6. 7. Lectures on developments and hot spots in RiMER Round Table: developments in research in marine environment and resources Lectures on coastal management Round Table: sustainable coastal management Lectures on marine ecosystem health Round Table: threats to marine ecosystem health Round Table: prospects in marine ecosystem health Lectures on global climate crisis Round Table: fossil records of climate change Round Table: challenges of global climate change to marine life and biological resources Lectures on marine resources and fisheries Round Table: future of fisheries in European regions Lectures on challenges for biodiversity conservation Round Table: challenges for biodiversity conservation Practical workshop: an approach to modelling in system biology Round Table: towards regional strategies for marine science Open workshop (cinema + discussion session): marine environment and resources revisited Learning & Teaching • Lectures: 40 hr • Computer sessions: 2 hr • Workshops: 18 hr Coordinator I Marigomez M Collins A Uriarte (AZTI) C Garcia Soto (IEO) Other teaching staff Other EHU staff To be determined Semester 2 1st week (February) ECTS 6 Level Compulsory (All) Bibliography Delivered during the course Assessment • Attendance is compulsory. All absences must be justified documentally. Active participation in the activities of the course is required; particular attention will be paid to the participation in open discussions in lectures, seminars and practicals. • Written reports (3): One 5 page journalistic summary of the RiMER Course One 5 page summary of the student's choice Round Table One 10 page report on one topic selected among the ones treated during the course Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. EuropeanMaster of Science in Marine EnvironmentandResources MasterThesis Coordinator I Marigómez Other teaching staff Sven Thajte (Soton) J Schäfer (UB1) M Poulicek (ULg) A Uriarte (AZTI) Semester 4 Timetable slot ECTS 30 Level Compulsory (All) MER EHU 501000 Synopsis 5‐6 month research on marine environment and resources within the framework of a research group active in the field Aims To provide an introduction to the chemistry of sea‐water through qualitative and quantitative approaches and presentation of the chemical interactions between the lithosphere, the biosphere, the atmosphere and the ocean. Objectives At the end of the Unit, you should: 1. demonstrate sufficiency for research in order to undertake the realisation of the PhD Thesis work, or a professional activity as researcher. Key Skills Acquired At the end of the Unit, you should be able to: 1. be integrated in the research group where the MTP has been carried out. 2. demonstrate basic skilfulness achieved regarding the methods employed in the MTP 3. design and plan and carry out a research work, under the consideration that the MTP must be undertaken during a period of 6 months 4. show quality in written scientific reporting 5. show quality in oral presentation and ability to discuss and defend each postulates concerning the MTP. Syllabus • • • • 5‐6 month research under the supervision of a PhD holder. Written report in English, French, Spanish or Basque language nd (+ 2 language summary), according to the standard structure/extension of a scientific paper. Dissertation will consist of a 20 min oral presentation plus a questions/discussion session for an additional 15 min. Oral presentation will be made in English and a simultaneous translation service will not be available. Learning & Teaching A list of available MSc Research projects is available every September The MER JPB may also accept a proposal made individually by a student, provided the proposed supervisor and host institution accept and always in compliance with the academic requirements of the Joint MER MSC programme. MER MSc students can follow their MSc research programme in any Partner institution or in Associated Partners or other collaborating institutions, which will host a student considering the field of his/her MSc Thesis, according the subject a student chooses. The MER Secretariat provides administrative support to formalize the required agreements with host institutions when the supervisors are from institutions other than the MER Consortium. Requisites: "pass" in 90 ECTS in the MER MSc Programme Assessment see next pages Course Evaluation By completion of University Unit Evaluation Questionnaire by students, annual assessment by Unit Co‐ordinator. 81 82 MERConsortium: SOTON,UBx, ULg, EHU REGULATIONS STABLISHED FOR THE PRESENTATION OF THE MSC THESIS 1) A complete pdf file (including signatures) of the written MSc Thesis report must be sent by email to MER Secretariat before deadline (early September; yearly published on the MER webpage). Likewise, the original and 3 paper copies must be sent by mail (with postmark date within 3 days after deadline). Besides, in order to incorporate the abstracts into the MER MSc web page, a CD with a PDF file including the cover and back pages, the tutor certificate form and two summaries (see below) is also required. One copy of the report will be deposited in the Master Library and will be available for those who request it conveniently. 2) Written reports can be presented in English, French, Spanish or Basque but in any case a second language summary1 must be also included. 3) The written report must be undertaken according to the standard structure and extension of a scientific paper, in which an extended Introduction is included in order to help in evaluating the candidate’s skills and basic knowledge in the study field. As a whole, the extension should correspond to a (numbered) 35‐50 pages manuscript plus Tables, Legends and Figures written in a common text processor (Word, …), with a letter type similar to Times New Roman 10‐12, with 1,5 space between lines and at least 2,5 cm margins at both sides. The candidate can decide to present it edited and formatted or without editing and formatting with Tables and Figures after the text. Use the cover front page, back page and tutor agreement form provided by the MER Secretariat. 4) The report structure will be as follows: • Cover page: title, affiliations, and indication, if it proceeds, of whether the • • • work has been published or submitted for publication in the form of an article or contribution to a congress, etc. Tutor agreement form and if different, also scientific supervisor signature Summary (max. 1 page) Second language summary (max. 2 pages) Introduction (scientific paper style ‐context, objectives, hypothesis, justification of the research interest‐, plus an additional preamble where the basic concepts of the research field are presented) Material and Methods Results Discussion: including a list of conclusions. (Results & Discussion section may be accepted as a single section) References • • • • (up to here 50 pages, at most) • Annexes: Tables, Legends of figures, Figures, etc. 5) The public dissertation and the discussion will be held in the Plentzia Marine station (PIE‐UPV/EHU) during the last week of September. 6) Dissertation will consist of a 20 min oral presentation, plus a questions/discussion session for an additional 15 min. Oral presentation will be made in English and simultaneous translation service will not be available. 1 Second language summary: a summary in any of the three other official MER MSc languages in which the MSc Thesis report has not been written, with a maximum of 2 pages in extent. The following aspects will be considered for evaluation, according to the Academic Assessment Form: • Integration of the student in the research group where the MSc Thesis research has been carried out. • Basic skills achieved regarding the methods employed . • Ability to design and plan and carry out a research work, under the consideration that the MSc Thesis must be undertaken within a period of 6 months. • Quality of the written scientific report. • Quality of the oral presentation and ability to discuss and defend each one’s postulates concerning the MSc thesis. • Overall, it will be evaluated on whether the candidate has achieved sufficiency for research in order to undertake in a next step the realisation of the PhD Thesis work or a professional activity, as a researcher in the field of marine environment and resources. After the public session, students will be requested to complete questionnaires to assess the quality of the MSc Thesis research programme and the MER MSc programme overall. A Graduation ceremony takes place after the vivas, with participation of students of at least two consecutive cohorts Any change, correction or amendment in the terms and requirements of this official call will be timely and transmitted to candidates. EuropeanMaster of Science in Marine EnvironmentandResources 83 84 MERConsortium: SOTON,UB1, ULg, EHU 2013‐0237 MEREMMC MER SECRETARIAT RESEARCH CENTRE FOR EXPERIMENTAL MARINE BIOLOGY AND BIOTECHNOLOGY (PLENTZIAKO ITSAS ESTAZIOA; PIE‐UPV/EHU) UNIVERSIDAD DEL PAIS VASCO /EUSKAL HERRIKO UNIBERTSITATEA AREATZA Z/G, E‐48620 PLENTZIA‐BIZKAIA BASQUE COUNTRY (SPAIN) e‐mail: [email protected] www.merconsortium.eu More u updated iinformation ccan be obtained from the following web sites http://www.soton.ac.uk http://www.ehu.es http://www.u‐bordeaux1.fr http://www.ulg.ac.be
