sherlock lab



sherlock

Gavin Sherlock, Ph.D.

Associate Professor

Department of Genetics
School of Medicine
Stanford University
Stanford, California 94305-5120

Voice: 650-498-6012
Fax: 650-724-3701


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The Sherlock Lab - Yeast Genomics and Evolution

The Sherlock lab is a yeast genomics lab that uses both experimental and computational approaches to characterize the yeast genome and uses yeast as a model system to study evolution. We are using both long- and short-term continuous culture (chemostat) experiments in conjunction with high throughput sequencing to understand the adaptive changes that occur in yeast in response to selective pressures as the yeast evolve in vitro. We are also using ultra-highthroughput sequencing to identify novel transcripts encoded by the C. albicans genome.

In addition, the Sherlock lab is also involved in several database projects, running the Candida Genome Database, the Aspergillus Genome Database and The Tuberculosis Database.

We have also written software for the analysis and visualization of high throughput data, including GO::TermFinder, Caryoscope, and GeneXplorer.


Selected Recent Publications

  1. Kvitek, D.J., Sherlock, G. (2013). Whole Genome, Whole Population Sequencing Reveals That Loss of Signaling Networks Is the Major Adaptive Strategy in a Constant Environment. PLoS Genetics 9(11): e1003972.
    PubMed PLoS
Genetics
  2. Muzzey, D., Schwartz, K., Weissman, J.S. and Sherlock, G. (2013). Assembly of a phased diploid Candida albicans genome facilitates allele-specific measurements and provides a simple model for repeat and indel structure. Genome Biol. 14(9):R97.
    PubMed
  3. Dunn, B., Paulish, T., Stanbery, A., Piotrowski, J., Koniges, G., Kroll, E., Louis, E.J., Liti, G., Sherlock, G., and Rosenzweig, F. (2013). Recurrent Rearrangement during Adaptive Evolution in an Interspecific Yeast Hybrid Suggests a Model for Rapid Introgression. PLoS Genetics 9(3): e1003366.
    PubMed PLoS
Genetics
  4. Schwartz, K., Wenger, J.W., Dunn, B. and Sherlock, G. (2012). APJ1 and GRE3 Homologs Work in Concert to Allow Growth in Xylose in a Natural Saccharomyces sensu stricto Hybrid Yeast. Genetics 191(2):621-32.
    PubMed
  5. Dunn, B., Richter, C., Kvitek, D.J., Pugh, T. and Sherlock, G. (2012). Analysis of the Saccharomyces cerevisiae pan-genome reveals a pool of copy number variants distributed in diverse yeast strains from differing industrial environments. Genome Research 22(5):908-24.
    PubMed
  6. Wenger, J.W., Piotrowski, J., Nagarajan, S., Chiotti, K., Sherlock, G. and Rosenzweig, F. (2011). Hunger Artists: Yeast Adapted to Carbon Limitation Show Trade-Offs under Carbon Sufficiency. PLoS Genetics 7(8): e1002202.
    PubMed PLoS Genetics
  7. Kvitek, D.J. and Sherlock, G. (2011). Reciprocal Sign Epistasis between Frequently Experimentally Evolved Adaptive Mutations Causes a Rugged Fitness Landscape. PLoS Genetics 7(4): e1002056.
    PubMed PLoS Genetics