Download I -, - 'J'

I
a
I5
;, -,
(A bstract.l
\1.I'hil tlio-Technologr (Semester pattenr) - Moditlcation of 51'llabus
- Implemented from the
academic rear 2008-09 onlvards - Orders Issued.
GENERAL AND ACADEMIC BRANCH _ I 'J' SECTION
\tr
( i i\1./J I r 42 I 9,/08
Read:
l.
2.
3.
Dared. Calicut University P.o, l6/01/2009.
Minutes o1'the meeting of Board of Studies in Bio-Technology of 301612008 - Item
No.3.
ltem No.2(xiii) of the minutes of meeting of Faculty of Science of 29/812008.
Item No.IIA (12) of the minutes of meeting of Academic Council of 7ll0/2008.
ORDER
l-he Board of Studies at its meeting held on 30/06,'2008, r,ide paper read
(l)
above, resolved
to consider the rnodiflcation of the Sl,llabus fbr N4.Phil Bio-Technology course.
The Faculty of Science hetd on 2910812008. vide paper read (2), endorsed the minutes
of
tloard of'studies and tlre Acadernic Council helcl on 0111012008 as per paper read (3) approved the
\anle
Sanction has therefbre been accorcieci to implcnterrt thc sy'llabus of M.Phil Bio-Technologl'
(Semester pattern) tiorn the acadernic i'ear 2008-09 onwards.
Orders are issued accordingly. Copy ot'the s1'llabus appended.
sd/ASSISTANT REGISTRAR (G&A_D
FOR REGISTRAR
fo
1
.
2.
Head of the Department of Bio-technology
l'he Director. College Development Council.
Copy to:
Controller of Exarninationsi EGIiEnquiry/Ex.Sn./
AR & DR concerned/ Tabulation Sn./
GAI 'F' Sn./ SF/DF/FC.
Forwarded./By Order
ae-."a*_
SECTION OFFICER
DTANILA\GAI\GA
l-Jl
a2'19
08
Or doc
,
I
a
I
t
.l
UNIVERSITY OF CALICUT
DEPARTMENT OF BIOTECHNOLOGY
SYLLABUSFoRM.PhiIBIoTECHNoLoGYISEM.ESTERPATTERN.,
2008-09)
tf t"tn Academic Year
EligibilitY for admission:
CandidateswithmastersdegreeinBrotechnology/Bioinformaticsl
Biochemistry/Microbiology/MolecularBiology/genetics/Agriculturel
with Biotechnology specializatton
sciences / Biological sctences
Veterinary
marks of
animal biotechnology ) with 55%
i
culture
tissue
/
(plant Biotechnology
by University
or foreign University recognized
this University or any other lndian
other regulations pertaining to
course
Phil
M
for
apply
to
of C,alicut are eligible
admission,course,schemeofevaluationshallbegovernedbytheexistingrules
of the UniversitY'
,l
1
UNIVERSITY OF CALICUT
DEPARTMENT OF BIOTECHNOLOGY
SYLLABUS FOR M.PhiI BIOTECHNOLOGY
SEMESTER PATTERN
(From Academic year 200g_09i
1' lntroduction to research topic, literature
coilection and review preparation
of
Bibilography, preparation of
manuscripts, reports / dissertation.
Experimentar designs, raboratory
practices, Biosafety
with respect rDI\jA
Technology
2. Principres of Microscopy: simpre
and compound mrcroscope, phase
contrast,
and inverted microscope, erectron
microscope
(TEM
& sEM), Flouresence
mrcroscope, confocal microscope
3'
Histochemistry' lmmunohistochemistry,
tissue preparation-wax embedding,
processing of microtome and
cryostat sections, rocalization of
metobolite:
proteins, nucleic acids, enzymes
4'
Microbiological techniques. Pure
culture techniques, enrichment techniques,
replica plating' cultivation of anacrobic
microorganoms, maintenance of microbial
cultures' Establishment, maintenance
and apprication of animal cell cultures.
b
L
.a
5
Plant tissue culture methods: Tissue culture media and growth regulators. cell
culture meristem culture, hairy root culture Protoplast isolation and fusion.
Secondary metabol ite p rod uction, generation of tra nsgen ic.plants
6. Principles and application of various instruments and techniques: colorimetry
U.V.-visible spectrophotometry, HPLC, FPLC, centrifuges, transilluminator,
Thermalcycler, sonicator, vacum concenirator, MS, NMR, COz incubator. Elisa
reader, DNA Sequencer
7 Chromatography
techniques: paper chromatography,
TLC,
column
chromotography-molecular sieving and lon exchange, affinity chromatography,
gas-chromatography, and HPLC
B. Electrophoretic techniques: Polyacrylamide and agarose gel electrophoresis,
capil.l,?ry electrophoresis,
2D electrophoresis, paper, Disc gel dectrophoresis.
Pulse field electrophoresis, Rocket gel, RlD, isoelectric focusing
9. Radioactivity: Decay and measurement of radio activity, Geiger -Muller
counter, Liquid scintillation counter, autoradiography radioimmunoassay.
Application of isotope techniques in Biological systems.
10. Extraction of DNA, RNA, analysis
of
nucleic acids, spectrophotometry,
colorimetry, electrophoresis, hybridization techniques
-
northern, in situ hybridization, FISH, colony hybridization,
southern, western,
PCR
amplification,
sequencing, cloning methods, RAPD, STS, RFLP, DNA, RNA Finger printing,
micro affay.
11. Protein isolation, purification, amino acid sequencing: antibody generation,
polyclonal and monoclonal
12 Application of Bioinformatics in prcteomics
and genornics e g sequence data
and genome data
analysis
,
References
Text Books
1' Modern Experimentar Biochemistry
- Rodney Boyer third edn.
2' Principles and techniques of practical
Biochemistry K.wilson and
J.walker
3' An introduction to practical Biochemistry
- D.T.plummer third Edn.
4' Molecular cloning - A-Laboratory manual
vol.l, ll & lll. sanbrook and Russel
2001
5. Short protocols in Molecular
Biology _ Ausbel et al.
6' Prant rissue curture - Theory and practice
-
s.s.Bhojwani and M.K.Razdan
Elesevuer pull.
7' Biochemistry
- Donard.Voet
and Judith G.voet John wirey and
sons rnc
a
Paper-ll Advances in Biotechnoloq,v
1) Recent development in microbiology: Microbial pathogenicity; Mechanism of
of
virulence, toxins, genetics of virulence, plasmids and virulence; Mechanism
produced by
drug resistance. Antibiotics: suipha drugs, pencillin; Types of toxins
bacteria Exo, Endo and Entero toxins, mode of action, virulence and
pathogenesis
bacteria,
2) Fermentations: Methanogenesis and acetogenesis; nitrate oxidizing
nitrate and sulPhate reduction
3) Degradation of xenobiotic compounds
-
pesticide degradation
Bioplastics and its aPPlication
industry
Microbial delignification of wood in pulp and paper
4) Viruses
of DNA and
General properties of viruses, viral enzymes, Reproduction
of DNA and RNA
RNA phages including Hlv; Replication and transcription
viruses; Viruses and cancer.
of DNA'
5) Biosynthesis of DNA, Chemical Synthesis
and purification
6) Enzyme catalysis and energy of activation' lsolation
of
of enzyme activity
enzymes, expression of enzyme activity; Regulation
Zymogens, covalent modification'
allosterism, Positive and negative modulation,
techniques of enzyme
phosphorylations; Enzyme inductions and repression,
immobilization'
membrahes, purification of
Recent development in protein purification using
Lysozymes
-)
Applicatron of enzyme technology e g.pharmaceutics. pulp, leather and
detergents industry.
7) A brief overview of Membrane structure and membrane systems comparlmentalization; Protein sorting and trafficking Mitochond ria and
chloroplasts, Cytoskeleton, Cell Junctions, extracellular Matrix, Cell Nucleus,
Cell signaling, Cell Cycle, Cancer and Apoptosrs
8) DNA replication, DNA repair ahd Recombination of DNA; Transcription and its
reg ulation ; Translation
References
Text Books
Environmental Microbiology - Methods and Protocols Ed:John.F.T.Spencer,
Alicia & Ragout de sepncer,2004. Humana Press
Microbiology - Mc.Kane, Kandell
Micrgbial life - Perry, Stanley and Lory
Microbiology - Prescott
Foundations in Microbiology Talaro et.ai
Molecular Biology of the Cell - Bruce Alberts e/ al
Molecular Cell Biology - Darn ell et al.
Genes - Benjamin Lewin
Cell and Molecular Biology - Karp
Lehninger Principles of Biochemistry
D.L.Nelson and M.M.Cox
Freeman and Company
Biochemistry
- Mathews, Van Holde
Fundamentals of Biochemistry
- Voet ef a/
Science Journals
Students are expected to keep track of the latesi reviews and articles on the
above-mentioned topics from high impact journals such as Cell, Sceince, Nature,
PNAS, Journal of Molecular Biology, Current Opinions in Cell Biology, Trends in
Biotechnology, Genes and Development etc.
7
'a
Paper-lll
- Special Papers (Options)
a.
(1) Recombinant DNA Technology
(2) Immunology and lmmunotechnology
(3) Plant Biotechnology
Recombinant DNA
Overview of genomic DNA analysis; preparation, manipulation and mapping of
HMW-DNA.
Cloning systems-Plasmid / Bacteriophage based vectors / Cosmids, and aftificial
chromosomes; Screening for recombinants
PCR in genomic analysis
-
genetic engineering with PCR, RT-PCR, 5' & 3'
RACE, MOPAC, Long PCR, lnverse PCR, Quantitative PCR and Differential
Display-PCR.
Site directed mutagenesis and its applications
Detection of DNA variations. DNA sequencing , Gene expression systems and
analysis
Protein interactions- Two-hybrid and other interaction systems.
Whole genome analysis and proteome analysis; DNA Microarrays
References
Text Books
1. Mblecular Cloning : A Laboratory manual Vol.l, ll & lll
-
Sambrook and Russel
2001. CSH, New York
. Practical Approach Series - Glover and Hans. IRL Press
3. Genome Analysis : A Laboratory manual Vol.l, ll , lll & lV - Birren et al, 2000,
2. DNA cloning
CSH, NY
4 Short Protocols in Molecular Biology - Ausbel et al
'1998-John Wiley, USA.
6:,
IMMUNOLOGY AND IMMUNOTECHNOLOGY
1. lntroduction: Phylogeny of lmmune system. lnnate and acquired/adaptive
immunity, Clonal nature of lmmune response, memory cells
2. Organization and structure of lymphoid organs: primary and secondary
3. Nature and biology of antigens and superantigens
4. Antibody structure and function, immunoglobulin super family
5. Major histocompatibility complex: structure and function of class I and class
molecules of human and mouse, regulation of MHC expresssion.
ll
6. BCR & TCR generation of diversity:VDJ rearrangement mechanism of variable
region, DNA rearrangement, isotype switching, expression of lg genes,
secretion of immunoglobulins
7. Complaint system: activation of classical and alternative pathways, regulation
of complement system.
8. Regulation of lmmune response:
-Anllgen processing and presentation. generation of humoral and cell mediated
rmmune responses
-Activation and differentiation of B and T -lymphocytes
9 Cell -mediated cytotoxicity:Mechanism of T cell and NK cell mediated lysis,
antibody-dependent cell mediated cytotoxicity, macrophage mediated
cytotoxicity
10 Hypersensitivity (Type l. ll, lll & lV)
l l.Autoimmunity: tolerance to self antigens, organ specific and systemic
autoimmune disease, role of MHC in autoimmunity, mechanism for
introduction of autoimmunity, treatment of auto imntune diseases.
12. Tumour immunology: Oncogenes and cancer introduction, tumour antigens
effector mechanism
to
tumours, mechanism
of tumour invasion and
immunotherapy of tumours
13. Hybridoma technology and monoclonal antibodies. Myeloma Cell lines Fusion of myeloma cells with antibody - producing B-cells. Fusion methods selection and screening methods for positive hybrids - single cell cloning
.
q
PLANT BIOTECHNOLOGY
1) lntroduction to Plant Biotechnology
lntroduction
preparation
to cell and cell culture; Tissue culture techntques;
and composition;
Media
Organogenesis; Somatic embryogenesis;
Somaclonal variation and application; Shoot-tip culture; Protoplast isolation
culture and function; Selection of hybrid cells and regeneratton of hybrid plants;
Anther, pollen and ovary culture for the production
of haploid plants and
homozygous lines
2) lntroduction to Secondary metabolites
Alkaloides, biological function of alkaloids; Plant amines; Non protein
amino acids; Quinones; Resins: Steriods: Phenyl propanoids; Polusoprenes;
Phe-polics: lnsecticids of plant origin
3) Production of lmmunomodulatory and antitumor compounds
Mechanism
of action; Alkylating agents;
Antimetabolites; DNA
intercalating agents; Production in culture eg. Ellipticines, vinblastine
4) Production of Food additives
Colour; Anthocyanins; Crocin and crocetlns; Flavours; Vanilla; Garlic and
onions; Sweeteners; Steriods
5) Production of lnsecticides
phytoecdystero nes : Azad i rachti n ; Rotenoid s;
O
Pyreth rins ; Quasin
6) Production of secondary metabolltes through cultures
production, purifleation and characten zation of monoclonal antibodies
Application of monoclonal in biomedical research in clinical diagnosis and
treatment
14. Antibody structure, antibody fold, CDR confirmation, Human monoclonal
antibodies from VJD-gene Repertoires: expression of .anybody fragments
in
Bacteria, Generation of antibody genes using pcR, expression
of Ab
fragments on the surface of bacteriophage, vectors for phage
display of Ab
fragments, phage dispray instead of conventionar hybridoma.
l5
Technology to produce antibodies; phage display to make
antibodies without
lmmunization to increase antibody affinity methods and protocols.
16 Strategies for Humanising antibodies; Humanised antibodies
cloning and
sequencing of murine rmmunuogroburin region segments,
cDR grafting,
expression of Humanised antibodies/reshaping technologies.
lT
Expressing antibodies in E.Coti. and overview, vector for
antibody secretion,
expression by secretion and detection using FLAG Tag
1'
Kuby lmmunology, 4th edition, R.A.Goldsby, Thomas J.Kindt,
i \!rrv\' su,
Barbara A.
Osbome (Freeman).
2.
lmmunology, A short course, 4th ecjition Eli Benjamin,
Rcchard coico,
Geoffrey Sunshine (Wiley_Liss)
3. Fundamentals of lmmunology, William paul
4. lmmunology, Roit et al
5. lmmnuobiology, CA Janeway et al, Current Biology Ltd.
6. current protocols in lmmunology, JE coligna et ai, John wiley &
Sons lnc
7. cellular and Molecurar lmmunology, A K Abbak et al., saunders
company.
8. Antibodiy Engineering cAK Borrebaeck, oxford University press
9. Protein Engineering: principles and practice, JL cleland, cs crait,
Wiley and Sons
10'Animal cell culture, J R w Master, oxford University press.
John
ll
I
'
Growth requirements (manipulation of media): Culture initiation. Time
course study and metabolite production: Optimisation, Screening and selection of
cells / clones for increasing the yield
7) Bioconversion of secondary metabolites
General principles
of
bioconversion; Methods
of
Bioconversion:
lmmobilization of plant cells: Enzyme preparation
8) Production of secondary metabolites through genetic transformation
Development
of
transformed organ cultures; Agrobacterium and
transformation process; Production of transformed hairy roots in plants; Antibody
production through plants; Edible vaccines; Production of secondary metabolite
In large scale
References
Text Books
Plant Biochemistry & Molecular Biology - Peter J.Lea, Richard C.Leegod
Plant Biochemistry & Molecular Biology - Hans, Walter Heldt
Plant Cell Tissue and Organ culture - Bahaj et.al
-
Bhojwani et al
Plant Cell and Tissue Culture - Narayanaswamy
Biotechnology Secondary metabolites - Ramawat et'al
Plant Cell Biotechnology - Endre.B
Plant Biotechnology - Slater,scott and Fowler
Plant Tissue Culture
a
I
i
,