Domestication and Divergence of Saccharomyces cerevisiae Beer Yeasts
Open accessAbstract
Whereas domestication of livestock, pets, and crops is well documented, it is still unclear to what extent microbes associated with the production of food have also undergone human selection and where the plethora of industrial strains originates from. Here, we present the genomes and phenomes of 157 industrial Saccharomyces cerevisiae yeasts. Our analyses reveal that today's industrial yeasts can be divided into five sublineages that are genetically and phenotypically separated from wild strains and originate from only a few ancestors through complex patterns of domestication and local divergence. Large-scale phenotyping and genome analysis further show strong industry-specific selection for stress tolerance, sugar utilization, and flavor production, while the sexual cycle and other phenotypes related to survival in nature show decay, particularly in beer yeasts. Together, these results shed light on the origins, evolutionary history, and phenotypic diversity of industrial yeasts and provide a resource for further selection of superior strains. PAPERCLIP.
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S. cerevisiae was detected at an overall prevalence of 18% (mean rel. ab. = 9.9% when present) in 8 food categories, reflecting its widespread use as industrial yeast.
“Specifically, S. cerevisiae was detected at an overall prevalence of 18% (mean rel. ab. = 9.9% when present) in 8 food categories, reflecting its widespread use as industrial yeast. 116”
From Unexplored microbial diversity from 2,500 food metagenomes and links with the human microbiome. (2024) · cites this paper as [116]
The Results section, “Niche and Geography Drive Diversification” (page unavailable), documents S. cerevisiae strains used in beer, wine, spirits, saké, and bread production, supporting its use as an industrial yeast. It does not report detection across eight food categories, 18% prevalence, or 9.9% mean relative abundance when present; the paper studies yeast strains rather than food-category prevalence. (LLM, conf=0.88)
Experimental — accuracy not yet measuredThe S. cerevisiae phylogeny comprised 424 strains and showed stratification by food type and geography in accordance with literature.
“Our phylogeny (Figure 7C) comprised 424 strains and showed a stratification by food type and geography in accordance with literature. 21,116,120”
From Unexplored microbial diversity from 2,500 food metagenomes and links with the human microbiome. (2024) · cites this paper as [116]
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- Authors
- Gallone, B., Steensels, J., Prahl, T., Soriaga, L., Saels, V., Herrera-Malaver, B., Merlevede, A., Roncoroni, M., Voordeckers, K., Miraglia, L., Teiling, C., Steffy, B., Taylor, M., Schwartz, A., Richardson, T., White, C., Baele, G., Maere, S., & Verstrepen, K. J.
- Affiliations
- Vlaams Instituut voor Biotechnologie (BE)
- Synthetic Genomics (United States) (US)
- Illumina (United States) (US)
- KU Leuven (BE)
- VIB-KU Leuven Center for Microbiology (BE)
- Corresponding author
- Maere, Steven
- Verstrepen, Kevin J.
- ORCID
- Venue
- Cell
- Publisher
- Elsevier BV
- Published
- 2016-09
- Volume
- 166
- Issue
- 6
- Pages
- 1397-1410.e16
- ISSN
- 0092-8674 (ISSN-L)
- PMC
- PMC5018251
- OpenAlex
- W2508506323
- Cited by
- 679
- References
- 76
- Citations by year
- 2026: 55 · 2025: 58 · 2024: 67 · 2023: 72 · 2022: 82 · 2021: 74 · 2020: 79 · 2019: 70 · 2018: 53 · 2017: 61 · 2016: 8
- FWCI
- 33.25
- Type
- journal article
- Language
- en
- Open access
- hybrid
- doi.org
- Licence
- Locations
- Cell (publishedVersion, cc-by-nc-nd)
- Europe PMC (PubMed Central) (publishedVersion, cc-by-nc-nd)
- PubMed Central (publishedVersion, cc-by-nc-nd)
- PubMed (publishedVersion)
- Ghent University Academic Bibliography (Ghent University) (submittedVersion, other-oa)
- Lirias (submittedVersion, other-oa)
- Funders
- Fonds Wetenschappelijk Onderzoek
- KU Leuven (CoG682009)
- Universiteit Gent
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Fungal and yeast genetics research
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Yeasts and Rust Fungi Studies
- Life Sciences › Agricultural and Biological Sciences › Food Science › Fermentation and Sensory Analysis
- Keywords
- Saccharomyces cerevisiae, beer yeast, industrial yeast strains, microbial domestication, human selection, stress tolerance, sugar utilization, flavor formation, reproductive cycle, phenotypic diversity, yeast genomics, phenotyping
- MeSH terms
- Beer, Genes, Fungal, Industrial Microbiology, Phenotype, Phylogeny, Ploidies, Saccharomyces cerevisiae, Selection, Genetic, Genetic Variation, Genome, Fungal, Microbial Viability, DNA Copy Number Variations
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
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