Comparative genomics of protoploid Saccharomycetaceae

Jean Luc Souciet, Bernard Dujon, Claude Gaillardin, Mark Johnston, Philippe V. Baret, Paul Cliften, David J. Sherman, Jean Weissenbach, Eric Westhof, Patrick Wincker, Claire Jubin, Julie Poulain, Valérie Barbe, Béatrice Ségurens, François Artiguenave, Véronique Anthouard, Benoit Vacherie, Marie Eve Val, Robert Fulton, Patrick MinxRichard Wilson, Pascal Durrens, Géraldine Jean, Christian Marck, Tiphaine Martin, Macha Nikolski, Thomas Rolland, Marie Line Seret, Serge Casarégola, Laurence Despons, Cécile Fairhead, Gilles Fischer, Ingrid Lafontaine, Véronique Leh, Marc Lemaire, Jacky De Montigny, Cécile Neuvéglise, Agnès Thierry, Isabelle Blanc-Lenfle, Claudine Bleykasten, Julie Diffels, Emilie Fritsch, Lionel Frangeul, Adrien Goëffon, Nicolas Jauniaux, Rym Kachouri-Lafond, Célia Payen, Serge Potier, Lenka Pribylova, Christophe Ozanne, Guy Franck Richard, Christine Sacerdot, Marie Laure Straub, Emmanuel Talla

Research output: Contribution to journalArticlepeer-review

156 Scopus citations

Abstract

Our knowledge of yeast genomes remains largely dominated by the extensive studies on Saccharomyces cerevisiae and the consequences of its ancestral duplication, leaving the evolution of the entire class of hemiascomycetes only partly explored. We concentrate here on five species of Saccharomycetaceae, a large subdivision of hemiascomycetes, that we call "protoploid" because they diverged from the S. cerevisiae lineage prior to its genome duplication. We determined the complete genome sequences of three of these species: Kluyveromyces (Lachancea) thermotolerans and Saccharomyces (Lachancea) kluyveri (two members of the newly described Lachancea clade), and Zygosaccharomyces rouxii. We included in our comparisons the previously available sequences of Kluyveromyces lactis and Ashbya (Eremothecium) gossypii. Despite their broad evolutionary range and significant individual variations in each lineage, the five protoploid Saccharomycetaceae share a core repertoire of approximately 3300 protein families and a high degree of conserved synteny. Synteny blocks were used to define gene orthology and to infer ancestors. Far from representing minimal genomes without redundancy, the five protoploid yeasts contain numerous copies of paralogous genes, either dispersed or in tandem arrays, that, altogether, constitute a third of each genome. Ancient, conserved paralogs as well as novel, lineage-specific paralogs were identified.

Original languageEnglish
Pages (from-to)1696-1709
Number of pages14
JournalGenome research
Volume19
Issue number10
DOIs
StatePublished - Oct 2009

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