Phylogenetic portrait of the saccharomyces cerevisiae functional genome

Patrick A. Gibney, Mark Hickman, Patrick H. Bradley, John C. Matese, David Botstein

Research output: Contribution to journalArticle

2 Citations (Scopus)

Abstract

The genome of budding yeast (Saccharomyces cerevisiae) contains approximately 5800 protein- encoding genes, the majority of which are associated with some known biological function. Yet the extent of amino acid sequence conservation of these genes over all phylahas only been partially examined. Here we provide a more comprehensive overview and visualization of the conservation of yeast genes and a means for browsing and exploring the data in detail, down to the individual yeast gene, at http://yeastphylogroups. princeton.edu. We used data from the OrthoMCL database, which has defined orthologs from approximately 150 completely sequenced genomes, including diverse representatives of the archeal, bacterial, and eukaryotic domains. By clustering genes based on similar patterns of conservation, we organized and visualized all the protein-encoding genes in yeast as a single heat map. Most genes fall into one of eight major clusters, called "phylogroups." Gene ontology analysis of the phylogroups revealed that they were associated with specific, distinct trends in gene function, generalizations likely to be of interest to a wide range of biologists.

Original languageEnglish (US)
Pages (from-to)1335-1340
Number of pages6
JournalG3: Genes, Genomes, Genetics
Volume3
Issue number8
DOIs
StatePublished - Jan 1 2013

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Saccharomyces cerevisiae
Genome
Genes
Yeasts
Gene Ontology
Saccharomycetales
Cluster Analysis
Amino Acid Sequence
Proteins
Hot Temperature
Databases

All Science Journal Classification (ASJC) codes

  • Genetics
  • Molecular Biology
  • Genetics(clinical)

Cite this

Gibney, P. A., Hickman, M., Bradley, P. H., Matese, J. C., & Botstein, D. (2013). Phylogenetic portrait of the saccharomyces cerevisiae functional genome. G3: Genes, Genomes, Genetics, 3(8), 1335-1340. https://doi.org/10.1534/g3.113.006585
Gibney, Patrick A. ; Hickman, Mark ; Bradley, Patrick H. ; Matese, John C. ; Botstein, David. / Phylogenetic portrait of the saccharomyces cerevisiae functional genome. In: G3: Genes, Genomes, Genetics. 2013 ; Vol. 3, No. 8. pp. 1335-1340.
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Gibney, PA, Hickman, M, Bradley, PH, Matese, JC & Botstein, D 2013, 'Phylogenetic portrait of the saccharomyces cerevisiae functional genome', G3: Genes, Genomes, Genetics, vol. 3, no. 8, pp. 1335-1340. https://doi.org/10.1534/g3.113.006585

Phylogenetic portrait of the saccharomyces cerevisiae functional genome. / Gibney, Patrick A.; Hickman, Mark; Bradley, Patrick H.; Matese, John C.; Botstein, David.

In: G3: Genes, Genomes, Genetics, Vol. 3, No. 8, 01.01.2013, p. 1335-1340.

Research output: Contribution to journalArticle

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