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High complexity and degree of genetic variation in Brettanomyces bruxellensis population

Jean-Sébastien Gounot, Cécile Neuvéglise, Kelle C. Freel, Hugo Devillers, Jure Piškur, Anne Friedrich, Joseph Schacherer
doi: https://doi.org/10.1101/826990
Jean-Sébastien Gounot
1Université de Strasbourg, CNRS, GMGM UMR 7156, F-67000 Strasbourg, France
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Cécile Neuvéglise
2Micalis Institute, INRA, AgroParisTech, Université Paris-Saclay, Jouy-en-Josas, France
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Kelle C. Freel
1Université de Strasbourg, CNRS, GMGM UMR 7156, F-67000 Strasbourg, France
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Hugo Devillers
2Micalis Institute, INRA, AgroParisTech, Université Paris-Saclay, Jouy-en-Josas, France
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Jure Piškur
3Department of Biology, Lund University, Lund, Sweden
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Anne Friedrich
1Université de Strasbourg, CNRS, GMGM UMR 7156, F-67000 Strasbourg, France
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  • For correspondence: anne.friedrich@unistra.fr schacherer@unistra.fr
Joseph Schacherer
1Université de Strasbourg, CNRS, GMGM UMR 7156, F-67000 Strasbourg, France
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  • For correspondence: anne.friedrich@unistra.fr schacherer@unistra.fr
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Abstract

Genome-wide characterization of genetic variants of a large population of individuals within the same species is essential to have a deeper insight into its evolutionary history as well as the genotype-phenotype relationship. Population genomic surveys have been performed in multiple yeast species, including the two model organisms, Saccharomyces cerevisiae and Schizosaccharomyces pombe. In this context, we sought to explore an uncharacterized yeast species, Brettanomyces bruxellensis, which is a major cause of wine spoilage but also can contribute to the specific flavor profile of some Belgium beers. We have completely sequenced the genome of 53 B. bruxellensis strains isolated worldwide. The annotation of the reference genome allowed us to define the gene content of this species. As previously suggested, our genomic data clearly highlighted that genetic diversity variation is related to ploidy level, which is variable in the B. bruxellensis species. Genomes are punctuated by multiple loss-of-heterozygosity regions while aneuploidies as well as segmental duplications are uncommon. Interestingly, triploid genomes are more prone to gene copy number variation than diploids. Finally, the pangenome of the species was reconstructed and was found to be small with few accessory genes compared to S. cerevisiae. The pangenome is composed of 4,923 core ORFs and 303 ORFs that are variable within the population. All these results highlight the different trajectories of species evolution and consequently the interest of establishing population genomic surveys in more populations.

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Posted November 04, 2019.
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High complexity and degree of genetic variation in Brettanomyces bruxellensis population
Jean-Sébastien Gounot, Cécile Neuvéglise, Kelle C. Freel, Hugo Devillers, Jure Piškur, Anne Friedrich, Joseph Schacherer
bioRxiv 826990; doi: https://doi.org/10.1101/826990
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High complexity and degree of genetic variation in Brettanomyces bruxellensis population
Jean-Sébastien Gounot, Cécile Neuvéglise, Kelle C. Freel, Hugo Devillers, Jure Piškur, Anne Friedrich, Joseph Schacherer
bioRxiv 826990; doi: https://doi.org/10.1101/826990

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