2014 Spring Seminar Speaker Series Xuegong Zhang, PhD
... Metagenomes are the mixture of DNAs from all microbial genomes (the microbiome) in samples of environment or human niches. The next-generation sequencing (NGS) technology has made large-scale study of metagenomes feasible, which opens a promising new way for understanding our “other self”: the micro ...
... Metagenomes are the mixture of DNAs from all microbial genomes (the microbiome) in samples of environment or human niches. The next-generation sequencing (NGS) technology has made large-scale study of metagenomes feasible, which opens a promising new way for understanding our “other self”: the micro ...
Link to Powerpoint
... and blue) • Some shared (purple) • We know very little about what most of these species do! ...
... and blue) • Some shared (purple) • We know very little about what most of these species do! ...
Dr.Carlos Goller
... During the course of the summer, you will use molecular biology techniques to purify genomic DNA from the microbial communities associated with drains and conduct PCR screens to identify samples positive for Delftia acidovorans. You will also use modern cloning techniques to clone an ...
... During the course of the summer, you will use molecular biology techniques to purify genomic DNA from the microbial communities associated with drains and conduct PCR screens to identify samples positive for Delftia acidovorans. You will also use modern cloning techniques to clone an ...
compgenomics
... “the branch of genetics that studies organisms in terms of their genomes (their full DNA sequences)” Computational genomics in TAU ...
... “the branch of genetics that studies organisms in terms of their genomes (their full DNA sequences)” Computational genomics in TAU ...
lecture28_Sequencing.. - University of Alberta
... There are 96 plant species with more than 20,000 expressed sequence tags (ESTs), but most are crop plants. If we count only medicinal plants, generously defined to include makers of secondary metabolites with purported health benefits, such as lycopene for tomatoes and resveratrol for grapes, there ...
... There are 96 plant species with more than 20,000 expressed sequence tags (ESTs), but most are crop plants. If we count only medicinal plants, generously defined to include makers of secondary metabolites with purported health benefits, such as lycopene for tomatoes and resveratrol for grapes, there ...
CALL FOR PROPOSALS 2008
... Include the technical information : DNA/RNA source, abundance of DNA, DNA purity level, axeny, specific information on genome size (bibliographic references or techniques for estimation of size), G+C content, information on ploidy, polymorphism level (details and methods of estimation), repeat struc ...
... Include the technical information : DNA/RNA source, abundance of DNA, DNA purity level, axeny, specific information on genome size (bibliographic references or techniques for estimation of size), G+C content, information on ploidy, polymorphism level (details and methods of estimation), repeat struc ...
Workflow for processing high throughput Single Molecule Real
... There are many sequencing-based approaches to understanding complex metagenomic communities spanning targeted amplification to whole-sample shotgun sequencing. While targeted approaches provide valuable data at low sequencing depth, they are limited by primer design and PCR. Whole-sample shotgun exp ...
... There are many sequencing-based approaches to understanding complex metagenomic communities spanning targeted amplification to whole-sample shotgun sequencing. While targeted approaches provide valuable data at low sequencing depth, they are limited by primer design and PCR. Whole-sample shotgun exp ...
Microbial Genomes
... Microbial genome sequencing projects • 330 bacteria, 23 archaea, 60 eukaryotic genome projects available for analysis at the NCBI website. • 487microbial genomes completed or currently being sequenced. ...
... Microbial genome sequencing projects • 330 bacteria, 23 archaea, 60 eukaryotic genome projects available for analysis at the NCBI website. • 487microbial genomes completed or currently being sequenced. ...
Metagenomics - University of Maryland, College Park
... organisms (2). So metagenomics as it pertains to phylogeny is comparing genetic sequences of unidentified, unculturable bacteria to that of known, culturable ones, in order to come to a conclusion about the evolutionary origins of the unculturable bacteria. • The main source of genetic material used ...
... organisms (2). So metagenomics as it pertains to phylogeny is comparing genetic sequences of unidentified, unculturable bacteria to that of known, culturable ones, in order to come to a conclusion about the evolutionary origins of the unculturable bacteria. • The main source of genetic material used ...
1 Microbial Ecology Example of the Marine Carbon Cycle:
... Unlike in the environment you can manipulate the environment within the bottle. ...
... Unlike in the environment you can manipulate the environment within the bottle. ...
People Pieces
... Living organisms are made of cells and every cell is designed to perform a specific function in the organism. Humans are made of trillions of cells, and the design and function of each cell, and thus of the organism, is controlled by genes. Each human cell contains 46 chromosomes, which are strands ...
... Living organisms are made of cells and every cell is designed to perform a specific function in the organism. Humans are made of trillions of cells, and the design and function of each cell, and thus of the organism, is controlled by genes. Each human cell contains 46 chromosomes, which are strands ...
Chapter 9: Gene Transfer, Genetic Engineering, and Genomics
... Gene Transfer, Genetic Engineering, and Genomics Chapter Summary and Essay Questions This chapter describes how prokaryotes can acquire genes from the environment and take on new characteristics, a process that no other living creature can perform. It follows the method prokaryotes use to exchange g ...
... Gene Transfer, Genetic Engineering, and Genomics Chapter Summary and Essay Questions This chapter describes how prokaryotes can acquire genes from the environment and take on new characteristics, a process that no other living creature can perform. It follows the method prokaryotes use to exchange g ...
Mathematical Tools for Understanding Genome Rearrangements
... The diversity of life is a direct result of inaccuracy in DNA replication. At some point in the past, humans and mice had a common ancestor, and many "mistakes" later, we have two apparently very different species. At the level of DNA, the evolutionary distance between organisms can be estimated by ...
... The diversity of life is a direct result of inaccuracy in DNA replication. At some point in the past, humans and mice had a common ancestor, and many "mistakes" later, we have two apparently very different species. At the level of DNA, the evolutionary distance between organisms can be estimated by ...
Probing diversity in a hidden world: applications of NGS in
... – There are a nonillion bacteria in the world (1030 cells) give or a take a few quadrillion. (This is more than the number of stars in the known universe) – Most of these 1030 bacterial cells are relatively small (0.3 - 3 µm) – Most of microbes have a nondescript morphology – The vast majority of mi ...
... – There are a nonillion bacteria in the world (1030 cells) give or a take a few quadrillion. (This is more than the number of stars in the known universe) – Most of these 1030 bacterial cells are relatively small (0.3 - 3 µm) – Most of microbes have a nondescript morphology – The vast majority of mi ...
Natural products and ecological interactions Adaptive evolution (i.e. “rapid”) Scents Colours
... Natural products and ecological interactions Adaptive evolution (i.e. “rapid”) ...
... Natural products and ecological interactions Adaptive evolution (i.e. “rapid”) ...
Kostas Konstantinidis - Metagenomics Resources!
... - What are the best approaches to re-analyze previous datasets with improved tools? - What is the progress on integrating different sequencing platforms? - How big a computer do I really need to do everything I want? Is it reasonable to expect access to this for myself? - Is metagenomics really usef ...
... - What are the best approaches to re-analyze previous datasets with improved tools? - What is the progress on integrating different sequencing platforms? - How big a computer do I really need to do everything I want? Is it reasonable to expect access to this for myself? - Is metagenomics really usef ...
ppt
... • Mini-scaffold: scaffold assembled only by paired ends of overlapping contigs (approx. 1X coverage) ...
... • Mini-scaffold: scaffold assembled only by paired ends of overlapping contigs (approx. 1X coverage) ...
Biological databases-Intro
... available is PubMed. But PubMed has only short abstracts. NO information about conditions, M&M etc We need to change this culture ...
... available is PubMed. But PubMed has only short abstracts. NO information about conditions, M&M etc We need to change this culture ...
Mutation identification by whole genome sequencing
... and repeat multiple times 4) run in an analyzer to separate DNA products of different sizes and detect them by fluorescence 5) Obtain sequence 2. Next Generation Sequencing by the Illumina method a. Completed in a flow cell. 8 lanes on each cell can produce 12 billion bases of sequence information b ...
... and repeat multiple times 4) run in an analyzer to separate DNA products of different sizes and detect them by fluorescence 5) Obtain sequence 2. Next Generation Sequencing by the Illumina method a. Completed in a flow cell. 8 lanes on each cell can produce 12 billion bases of sequence information b ...
Powerpoint - University of British Columbia
... Sequencing • Sanger sequencing for the past 25 years • Expensive, little coverage, limited nucleotide (nt) per run • Ngseq (NG 2nd) has greatly reduced cost per amount of data generated, greater coverage • Different technologies pending on company producing the technology (Metzker 2010 Nature Review ...
... Sequencing • Sanger sequencing for the past 25 years • Expensive, little coverage, limited nucleotide (nt) per run • Ngseq (NG 2nd) has greatly reduced cost per amount of data generated, greater coverage • Different technologies pending on company producing the technology (Metzker 2010 Nature Review ...
The Human Genome Project CH 13 Sec 3 notes
... The Human Genome Project CH 13 Sec 3 Human Genome Project (HGB) •International project •Began in 1990, completed in ________ •Objective: ________________________________________________________ –DNA sequencing •Many other genomes have now been sequenced Sequencing the genome •The 46 chromosomes were ...
... The Human Genome Project CH 13 Sec 3 Human Genome Project (HGB) •International project •Began in 1990, completed in ________ •Objective: ________________________________________________________ –DNA sequencing •Many other genomes have now been sequenced Sequencing the genome •The 46 chromosomes were ...
Cutting-Edge Forensics
... forensic anthropology methods include creating a so-called biological profile of a crime victim or set of remains. This involves taking several measurements, especially of skeletal and cranial features, that can indicate age, gender, stature, and even ancestry. ...
... forensic anthropology methods include creating a so-called biological profile of a crime victim or set of remains. This involves taking several measurements, especially of skeletal and cranial features, that can indicate age, gender, stature, and even ancestry. ...
Figure 2 Representation of the steps required for DNA sequence
... Supplementary Figure 1 Representation of the steps required for DNA sequence analysis to detect a germline mutation. Family members of the index case, that is the proband (arrow), are ascertained. After genetic counseling and obtaining informed consent, venous blood samples are collected and leucocy ...
... Supplementary Figure 1 Representation of the steps required for DNA sequence analysis to detect a germline mutation. Family members of the index case, that is the proband (arrow), are ascertained. After genetic counseling and obtaining informed consent, venous blood samples are collected and leucocy ...
Metagenomics
Metagenomics is the study of genetic material recovered directly from environmental samples. The broad field may also be referred to as environmental genomics, ecogenomics or community genomics. While traditional microbiology and microbial genome sequencing and genomics rely upon cultivated clonal cultures, early environmental gene sequencing cloned specific genes (often the 16S rRNA gene) to produce a profile of diversity in a natural sample. Such work revealed that the vast majority of microbial biodiversity had been missed by cultivation-based methods. Recent studies use either ""shotgun"" or PCR directed sequencing to get largely unbiased samples of all genes from all the members of the sampled communities. Because of its ability to reveal the previously hidden diversity of microscopic life, metagenomics offers a powerful lens for viewing the microbial world that has the potential to revolutionize understanding of the entire living world. As the price of DNA sequencing continues to fall, metagenomics now allows microbial ecology to be investigated at a much greater scale and detail than before.
