ArticleBMC genomics2019
Chromosome level assembly and comparative genome analysis confirm lager-brewing yeasts originated from a single hybridization.
Article in BMC genomics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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31 citing papers in PubMed.
- From Oak to Wine: Evolution, Admixture, and Adaptation of California and British Columbia Saccharomyces Cerevisiae Wine Strains.Genome biology and evolution · 2026Article
- Dotplotic: a lightweight visualization tool for BLAST + alignments and genomic annotations.BMC bioinformatics · 2025Article
- Isolation and characterization of haploid heterothallic beer yeasts.Applied microbiology and biotechnology · 2025Article
- Horizontal Transfer and Recombination Fuel Ty4 Retrotransposon Evolution in Saccharomyces.Genome biology and evolution · 2025Article
- Chromosome-level subgenome-aware de novo assembly provides insight intoGenome research · 2024Article
- Expression patterns ofApplied and environmental microbiology · 2024Article
- Chromosome-level Subgenome-awarebioRxiv : the preprint server for biology · 2024Article
- Sequencing the Genomes of the First Terrestrial Fungal Lineages: What Have We Learned?Microorganisms · 2023Review
- Loss of Heterozygosity and Its Importance in Evolution.Journal of molecular evolution · 2023Review
- A new hypothesis for the origin of the lager yeast Saccharomyces pastorianus.FEMS yeast research · 2023Article
- HAT: haplotype assembly tool using short and error-prone long reads.Bioinformatics (Oxford, England) · 2022Article
- Identification of European isolates of the lager yeast parent Saccharomyces eubayanus.FEMS yeast research · 2022Article
- Compensatory Genetic and Transcriptional Cytonuclear Coordination in Allopolyploid Lager Yeast (Saccharomyces pastorianus).Molecular biology and evolution · 2022Article
- Chromosome-level assemblies from diverse clades reveal limited structural and gene content variation in the genome of Candida glabrata.BMC biology · 2022Article
- Co-Fermentations of Kveik with Non-Conventional Yeasts for Targeted Aroma Modulation.Microorganisms · 2022Article
- Aneuploidy influences the gene expression profiles in Saccharomyces pastorianus group I and II strains during fermentation.PLoS genetics · 2022Article
- Rapid selection response to ethanol in Saccharomyces eubayanus emulates the domestication process under brewing conditions.Microbial biotechnology · 2022Article
- BeyondFrontiers in microbiology · 2022Article
- Transcriptional Profile of the Industrial Hybrid Saccharomyces pastorianus Reveals Temperature-Dependent Allele Expression Bias and Preferential Orthologous Protein Assemblies.Molecular biology and evolution · 2021Article
- Telomere-to-telomere genome assembly of asparaginase-producing Trichoderma simmonsii.BMC genomics · 2021Article
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8 authors.
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Abstract
backgroundThe lager brewing yeast, S. pastorianus, is a hybrid between S. cerevisiae and S. eubayanus with extensive chromosome aneuploidy. S. pastorianus is subdivided into Group 1 and Group 2 strains, where Group 2 strains have higher copy number and a larger degree of heterozygosity for S. cerevisiae chromosomes. As a result, Group 2 strains were hypothesized to have emerged from a hybridization event distinct from Group 1 strains. Current genome assemblies of S. pastorianus strains are incomplete and highly fragmented, limiting our ability to investigate their evolutionary history.
resultsTo fill this gap, we generated a chromosome-level genome assembly of the S. pastorianus strain CBS 1483 from Oxford Nanopore MinION DNA sequencing data and analysed the newly assembled subtelomeric regions and chromosome heterozygosity. To analyse the evolutionary history of S. pastorianus strains, we developed Alpaca: a method to compute sequence similarity between genomes without assuming linear evolution. Alpaca revealed high similarities between the S. cerevisiae subgenomes of Group 1 and 2 strains, and marked differences from sequenced S. cerevisiae strains.
conclusionsOur findings suggest that Group 1 and Group 2 strains originated from a single hybridization involving a heterozygous S. cerevisiae strain, followed by different evolutionary trajectories. The clear differences between both groups may originate from a severe population bottleneck caused by the isolation of the first pure cultures. Alpaca provides a computationally inexpensive method to analyse evolutionary relationships while considering non-linear evolution such as horizontal gene transfer and sexual reproduction, providing a complementary viewpoint beyond traditional phylogenetic approaches.
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