Ecological genomics seminar

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The Ecological Genomics page

This page is for use of participants in EEB 6485 Seminar in Ecological Genomics

To upload a pdf use this form (note that this form requires authentication; contact Eric Schultz for the username and password)
To add a link to an uploaded journal article pdf, review the instructions that will arrive in an email following each successful use of the upload form (more help on hypertext links in Help).
Overview of the 454 sequencing technology. From Rothberg, J.M. and J.H. Leamon. 2008. Nature Biotechnology 26: 1117-1124

The Spring 2010 Edition

February 3

Pdficon small.gifRokas, A. and P. Abbot. 2009 Harnessing genomics for evolutionary insights. Trends in Ecology and Evolution 24:192-200.
Pdficon small.gifUngerer, M.C., L.C. Johnson and M.A. Herman. 2008. Ecological genomics: understanding gene and genome function in the natural environment. Heredity 100: 178-183.

February 10

Snow day.

February 17

Pdficon small.gif Place et al 2008 MEPS.pdf Gene expression in the intertidal mussel Mytilus californianus: physiological response to environmental factors on a biogeographic scale

February 24

March 3

March 17

Pdficon small.gif Metzker, M. L. 2010. Sequencing technologies - the next generation. Nature Reviews Genetics 11: 31-46.

March 24

March 31

April 7

April 14

April 21

April 28

Topics of interest

Toyshop: overview of next generation sequencing technologies (Rachel O'Neill, rescheduled tentatively for 3/3)
Functional variability in gene expression; response to abiotic factors, social factors, other species
Linking intra- and interspecific genomic variability to morphological variability
Environmentally-mediated modification of the genome; epigenetics
Metagenomics: genetic variability at the community level
Genomics and community/ecosystem-scale processes
Genomics and development: how regulatory pathways shape morphology
Genomics and systematics: discovery of informative loci

Reference compilations

Pdficon small.gifAn ecological genomics bibliography

March 2010 Special Issue of Molecular Ecology on NEXT GENERATION MOLECULAR ECOLOGY

Methods-oriented overview papers

Pdficon small.gif Metzker, M. L. 2010. Sequencing technologies - the next generation. Nature Reviews Genetics 11: 31-46.
Pdficon small.gifMorozova, O., M. Hirst, and M. A. Marra. 2009. Applications of New Sequencing Technologies for Transcriptome Analysis. Annual Review of Genomics and Human Genetics 10: 135-151.
Pdficon small.gif Mortazavi, A., B. A. Williams, K. McCue, L. Schaeffer, and B. Wold. 2008. Mapping and quantifying mammalian transcriptomes by RNA-Seq. Nature Methods 5: 621-628.
Pdficon small.gif Rothberg, J. M., and J. H. Leamon. 2008. The development and impact of 454 sequencing. Nature Biotechnology 26: 1117-1124.
Pdficon small.gif Schuster, S. C. 2008. Next-generation sequencing transforms today's biology. Nature Methods 5: 16-18.
Pdficon small.gif Shendure, J., and H. L. Ji. 2008. Next-generation DNA sequencing. Nature Biotechnology 26: 1135-1145.
Pdficon small.gif Weber, A. P. M., K. L. Weber, K. Carr, C. Wilkerson, and J. B. Ohlrogge. 2007. Sampling the arabidopsis transcriptome with massively parallel pyrosequencing. Plant Physiology 144: 32-42.