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The genomic and phenotypic diversity of Schizosaccharomyces pombe.

Jeffares, Daniel C and Rallis, Charalampos and Rieux, Adrien and Speed, Doug and Převorovský, Martin and Mourier, Tobias and Marsellach, Francesc X and Iqbal, Zamin and Lau, Winston and Cheng, Tammy MK and Pracana, Rodrigo and Mülleder, Michael and Lawson, Jonathan LD and Chessel, Anatole and Bala, Sendu and Hellenthal, Garrett and O'Fallon, Brendan and Keane, Thomas and Simpson, Jared T and Bischof, Leanne and Tomiczek, Bartlomiej and Bitton, Danny A and Sideri, Theodora and Codlin, Sandra and Hellberg, Josephine EEU and van Trigt, Laurent and Jeffery, Linda and Li, Juan-Juan and Atkinson, Sophie and Thodberg, Malte and Febrer, Melanie and McLay, Kirsten and Drou, Nizar and Brown, William and Hayles, Jacqueline and Carazo Salas, Rafael E and Ralser, Markus and Maniatis, Nikolas and Balding, David J and Balloux, Francois and Durbin, Richard and Bähler, Jürg (2015) 'The genomic and phenotypic diversity of Schizosaccharomyces pombe.' Nature Genetics, 47 (3). 235 - 241. ISSN 1061-4036

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Abstract

Natural variation within species reveals aspects of genome evolution and function. The fission yeast Schizosaccharomyces pombe is an important model for eukaryotic biology, but researchers typically use one standard laboratory strain. To extend the usefulness of this model, we surveyed the genomic and phenotypic variation in 161 natural isolates. We sequenced the genomes of all strains, finding moderate genetic diversity (π = 3 × 10(-3) substitutions/site) and weak global population structure. We estimate that dispersal of S. pombe began during human antiquity (∼340 BCE), and ancestors of these strains reached the Americas at ∼1623 CE. We quantified 74 traits, finding substantial heritable phenotypic diversity. We conducted 223 genome-wide association studies, with 89 traits showing at least one association. The most significant variant for each trait explained 22% of the phenotypic variance on average, with indels having larger effects than SNPs. This analysis represents a rich resource to examine genotype-phenotype relationships in a tractable model.

Item Type: Article
Uncontrolled Keywords: Humans, Schizosaccharomyces, Genomics, Genotype, Phenotype, Polymorphism, Single Nucleotide, Genome, Fungal, Genetic Variation, Genome-Wide Association Study
Divisions: Faculty of Science and Health > Life Sciences, School of
Depositing User: Elements
Date Deposited: 18 Jun 2021 11:31
Last Modified: 18 Jun 2021 12:15
URI: http://repository.essex.ac.uk/id/eprint/26730

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