A Gondwanan imprint on global diversity and domestication of wine and cider yeast Saccharomyces uvarum

Pedro Almeida, Carla Gonçalves, Diego Libkind, Martin Bontrager, Isabelle Masneuf-Pomarède, Warren Albertin, Pascal Durrens, David James Sherman, Philippe Marullo, Chris Todd Hittinger, Paula Gonçalves, José Paulo Sampaio

Research output: Contribution to journalArticle

95 Citations (Scopus)

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.

Original languageEnglish
Article number4044
JournalNature Communications
Volume5
DOIs
Publication statusPublished - 2 Jun 2014

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wines
saccharomyces
Saccharomyces
fermentation
Wine
yeast
Yeast
Fermentation
Yeasts
genes
Genes
Phylogeography
beverages
biological diversity
Metagenomics
Gene Ontology
Beverages
Dermatoglyphics
Northern Hemisphere
continents

Keywords

  • BAYANUS VAR
  • UVARUM
  • POPULATION-STRUCTURE
  • maximum-likelihood
  • GENETIC-VARIATION
  • MOLECULAR CHARACTERIZATION
  • EVOLUTIONARY GENETICS
  • SOUTHERN PERSPECTIVE
  • SEQUENCE DIVERSITY
  • CEREVISIAE

Cite this

Almeida, Pedro ; Gonçalves, Carla ; Libkind, Diego ; Bontrager, Martin ; Masneuf-Pomarède, Isabelle ; Albertin, Warren ; Durrens, Pascal ; Sherman, David James ; Marullo, Philippe ; Todd Hittinger, Chris ; Gonçalves, Paula ; Sampaio, José Paulo. / A Gondwanan imprint on global diversity and domestication of wine and cider yeast Saccharomyces uvarum. In: Nature Communications. 2014 ; Vol. 5.
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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.",
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Almeida, P, Gonçalves, C, Libkind, D, Bontrager, M, Masneuf-Pomarède, I, Albertin, W, Durrens, P, Sherman, DJ, Marullo, P, Todd Hittinger, C, Gonçalves, P & Sampaio, JP 2014, 'A Gondwanan imprint on global diversity and domestication of wine and cider yeast Saccharomyces uvarum', Nature Communications, vol. 5, 4044. https://doi.org/10.1038/ncomms5044

A Gondwanan imprint on global diversity and domestication of wine and cider yeast Saccharomyces uvarum. / Almeida, Pedro; Gonçalves, Carla; Libkind, Diego; Bontrager, Martin; Masneuf-Pomarède, Isabelle; Albertin, Warren; Durrens, Pascal; Sherman, David James; Marullo, Philippe; Todd Hittinger, Chris; Gonçalves, Paula; Sampaio, José Paulo.

In: Nature Communications, Vol. 5, 4044, 02.06.2014.

Research output: Contribution to journalArticle

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AU - Durrens, Pascal

AU - Sherman, David James

AU - Marullo, Philippe

AU - Todd Hittinger, Chris

AU - Gonçalves, Paula

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AB - 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.

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Almeida P, Gonçalves C, Libkind D, Bontrager M, Masneuf-Pomarède I, Albertin W et al. A Gondwanan imprint on global diversity and domestication of wine and cider yeast Saccharomyces uvarum. Nature Communications. 2014 Jun 2;5. 4044. https://doi.org/10.1038/ncomms5044