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Genomic sequence diversity and population structure of Saccharomyces cerevisiae assessed by RAD-seq.


ABSTRACT: The budding yeast Saccharomyces cerevisiae is important for human food production and as a model organism for biological research. The genetic diversity contained in the global population of yeast strains represents a valuable resource for a number of fields, including genetics, bioengineering, and studies of evolution and population structure. Here, we apply a multiplexed, reduced genome sequencing strategy (restriction site-associated sequencing or RAD-seq) to genotype a large collection of S. cerevisiae strains isolated from a wide range of geographical locations and environmental niches. The method permits the sequencing of the same 1% of all genomes, producing a multiple sequence alignment of 116,880 bases across 262 strains. We find diversity among these strains is principally organized by geography, with European, North American, Asian, and African/S. E. Asian populations defining the major axes of genetic variation. At a finer scale, small groups of strains from cacao, olives, and sake are defined by unique variants not present in other strains. One population, containing strains from a variety of fermentations, exhibits high levels of heterozygosity and a mixture of alleles from European and Asian populations, indicating an admixed origin for this group. We propose a model of geographic differentiation followed by human-associated admixture, primarily between European and Asian populations and more recently between European and North American populations. The large collection of genotyped yeast strains characterized here will provide a useful resource for the broad community of yeast researchers.

SUBMITTER: Cromie GA 

PROVIDER: S-EPMC3852379 | biostudies-literature | 2013 Dec

REPOSITORIES: biostudies-literature

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Genomic sequence diversity and population structure of Saccharomyces cerevisiae assessed by RAD-seq.

Cromie Gareth A GA   Hyma Katie E KE   Ludlow Catherine L CL   Garmendia-Torres Cecilia C   Gilbert Teresa L TL   May Patrick P   Huang Angela A AA   Dudley Aimée M AM   Fay Justin C JC  

G3 (Bethesda, Md.) 20131209 12


The budding yeast Saccharomyces cerevisiae is important for human food production and as a model organism for biological research. The genetic diversity contained in the global population of yeast strains represents a valuable resource for a number of fields, including genetics, bioengineering, and studies of evolution and population structure. Here, we apply a multiplexed, reduced genome sequencing strategy (restriction site-associated sequencing or RAD-seq) to genotype a large collection of S.  ...[more]

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