title: A Gondwanan imprint on global diversity and domestication of wine and cider yeast Saccharomyces uvarum.
abstract: In addition to Saccharomyces cerevisiae, the cryotolerant yeast species S. uvarum is also used for wine and cider fermentation but nothing is known about its natural history. Here we use a population genomics approach to investigate its global phylogeography and domestication fingerprints using a collection of isolates obtained from fermented beverages and from natural environments on five continents. South American isolates contain more genetic diversity than that found in the Northern Hemisphere. Moreover, coalescence analyses suggest that a Patagonian sub-population gave rise to the Holarctic population through a recent bottleneck. Holarctic strains display multiple introgressions from other Saccharomyces species, those from S. eubayanus being prevalent in European strains associated with human-driven fermentations. These introgressions are absent in the large majority of wild strains and gene ontology analyses indicate that several gene categories relevant for wine fermentation are overrepresented. Such findings constitute a first indication of domestication in S. uvarum.
authors.affiliation: 1] Centro de Recursos Microbiológicos, Departamento de Ciências da Vida, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal [2].
authors.forename: Pedro
authors.initials: P
authors.lastname: Almeida
authors.affiliation: 1] Centro de Recursos Microbiológicos, Departamento de Ciências da Vida, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal [2].
authors.forename: Carla
authors.initials: C
authors.lastname: Gonçalves
authors.affiliation: Centro de Recursos Microbiológicos, Departamento de Ciências da Vida, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal.
authors.forename: Sara
authors.initials: S
authors.lastname: Teixeira
authors.affiliation: Laboratorio de Microbiología Aplicada y Biotecnología, Instituto de Investigaciones en Biodiversidad y Medio-ambiente, INIBIOMA (CONICET-UNComahue), 8400 Bariloche, Argentina.
authors.forename: Diego
authors.initials: D
authors.lastname: Libkind
authors.affiliation: Laboratory of Genetics, Genome Center of Wisconsin, Wisconsin Energy Institute, DOE Great Lakes Bioenergy Research Center, University of Wisconsin-Madison, Madison, Wisconsin 53706, USA.
authors.forename: Martin
authors.initials: M
authors.lastname: Bontrager
authors.affiliation: Bordeaux Sciences agro, EA Œnologie 4577, ISVV, Villenave d'Ornon F-33882, France.
authors.forename: Isabelle
authors.initials: I
authors.lastname: Masneuf-Pomarède
authors.affiliation: University Bordeaux, EA Œnologie 4577, ISVV, Villenave d'Ornon F-33882, France.
authors.forename: Warren
authors.initials: W
authors.lastname: Albertin
authors.affiliation: CNRS UMR 5800, University Bordeaux, INRIA project-team Magnome, Talence F33400, France.
authors.forename: Pascal
authors.initials: P
authors.lastname: Durrens
authors.affiliation: CNRS UMR 5800, University Bordeaux, INRIA project-team Magnome, Talence F33400, France.
authors.forename: David James
authors.initials: DJ
authors.lastname: Sherman
authors.affiliation: 1] University Bordeaux, EA Œnologie 4577, ISVV, Villenave d'Ornon F-33882, France [2] BIOLAFFORT, Bordeaux F-33072, France.
authors.forename: Philippe
authors.initials: P
authors.lastname: Marullo
authors.affiliation: Laboratory of Genetics, Genome Center of Wisconsin, Wisconsin Energy Institute, DOE Great Lakes Bioenergy Research Center, University of Wisconsin-Madison, Madison, Wisconsin 53706, USA.
authors.forename: Chris Todd
authors.initials: CT
authors.lastname: Hittinger
authors.affiliation: Centro de Recursos Microbiológicos, Departamento de Ciências da Vida, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal.
authors.forename: Paula
authors.initials: P
authors.lastname: Gonçalves
authors.affiliation: Centro de Recursos Microbiológicos, Departamento de Ciências da Vida, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal.
authors.forename: José Paulo
authors.initials: JP
authors.lastname: Sampaio
mesh_terms: D004271:DNA, Fungal / Q000235:genetics*; D005285:Fermentation; D014644:Genetic Variation; D056186:Metagenomics; D058974:Phylogeography; D012440:Saccharomyces / Q000235:genetics*
chemical_list: D004271:DNA, Fungal