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