title: Whole-Genome Sequencing and Intraspecific Analysis of the Yeast Species Lachancea quebecensis.
abstract: The gold standard in yeast population genomics has been the model organism Saccharomyces cerevisiae. However, the exploration of yeast species outside the Saccharomyces genus is essential to broaden the understanding of genome evolution. Here, we report the analyses of whole-genome sequences of nineisolates from the recently described yeast species Lachancea quebecensis. The genome of one isolate was assembled and annotated, and the intraspecific variability within L. quebecensis was surveyed by comparing the sequences from the eight other isolates to this reference sequence. Our study revealed that these strains harbor genomes with an average nucleotide diversity of π = 2 × 10(-3) which is slightly lower, although on the same order of magnitude, as that previously determined for S. cerevisiae (π = 4 × 10(-3)). Our results show that even though these isolates were all obtained from a relatively isolated geographic location, the same ecological source, and represent a smaller sample size than is available for S. cerevisiae, the levels of divergence are similar to those observed in this model species. This divergence is essentially linked to the presence of two distinct clusters delineated according to geographic location. However, even with relatively similar ranges of genome divergence, L. quebecensis has an extremely low global phenotypic variance of 0.062 compared with 0.59 previously determined in S. cerevisiae.
authors.affiliation: Department of Genetics, Genomics and Microbiology, UMR7156, University of Strasbourg - CNRS, Strasbourg, France.
authors.forename: Kelle C
authors.initials: KC
authors.lastname: Freel
authors.affiliation: Department of Genetics, Genomics and Microbiology, UMR7156, University of Strasbourg - CNRS, Strasbourg, France.
authors.forename: Anne
authors.initials: A
authors.lastname: Friedrich
authors.affiliation: INRA, UMR1319 Micalis, Jouy-en-Josas, France AgroParisTech, UMR1319 Micalis, Jouy-en-Josas, France.
authors.forename: Véronique
authors.initials: V
authors.lastname: Sarilar
authors.affiliation: INRA, UMR1319 Micalis, Jouy-en-Josas, France AgroParisTech, UMR1319 Micalis, Jouy-en-Josas, France.
authors.forename: Hugo
authors.initials: H
authors.lastname: Devillers
authors.affiliation: INRA, UMR1319 Micalis, Jouy-en-Josas, France AgroParisTech, UMR1319 Micalis, Jouy-en-Josas, France.
authors.forename: Cécile
authors.initials: C
authors.lastname: Neuvéglise
authors.affiliation: Department of Genetics, Genomics and Microbiology, UMR7156, University of Strasbourg - CNRS, Strasbourg, France schacherer@unistra.fr.
authors.forename: Joseph
authors.initials: J
authors.lastname: Schacherer
mesh_terms: D019143:Evolution, Molecular; D016681:Genome, Fungal / Q000235:genetics*; D054629:Genome, Mitochondrial; D059014:High-Throughput Nucleotide Sequencing; D058977:Molecular Sequence Annotation; D004718:Saccharomycetales / Q000235:genetics*; D017421:Sequence Analysis
keywords: Lachancea quebecensis; genome evolution; intraspecific diversity; phenotype