ArticleG3 (Bethesda, Md.)2016
Genome Sequence and Analysis of a Stress-Tolerant, Wild-Derived Strain of Saccharomyces cerevisiae Used in Biofuels Research.
Article in G3 (Bethesda, Md.), 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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Who cites it
35 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
- Comparative functional genomics ofMicrobiology spectrum · 2026Article
- Loss of PDR3 alters metabolome in response to MCHM, a synthetic hydrotrope.Current genetics · 2025Article
- Core gene set of the speciesbioRxiv : the preprint server for biology · 2025Article
- Characterization and phylogenetic analysis of the complete mitochondrial genome ofMitochondrial DNA. Part B, Resources · 2024Article
- Whole genome sequencing of Canadian Saccharomyces cerevisiae strains isolated from spontaneous wine fermentations reveals a new Pacific West Coast Wine clade.G3 (Bethesda, Md.) · 2023Article
- Improved Sugarcane-Based Fermentation Processes by an Industrial Fuel-Ethanol Yeast Strain.Journal of fungi (Basel, Switzerland) · 2023Article
- PKA regulatory subunit Bcy1 couples growth, lipid metabolism, and fermentation during anaerobic xylose growth in Saccharomyces cerevisiae.PLoS genetics · 2023Article
- Fungal biotechnology: From yesterday to tomorrow.Frontiers in fungal biology · 2023Review
- Saccharomyces cerevisiae employs complex regulation strategies to tolerate low pH stress during ethanol production.Microbial cell factories · 2022Article
- Comparative functional genomics identifies an iron-limited bottleneck in aSynthetic and systems biotechnology · 2022Article
- Engineered yeast genomes accurately assembled from pure and mixed samples.Nature communications · 2021Article
- NaturalFrontiers in microbiology · 2021Article
- Landscape of the Dark Transcriptome Revealed Through Re-mining Massive RNA-Seq Data.Frontiers in genetics · 2021Article
- Comparative Genomics Supports That Brazilian BioethanolFrontiers in microbiology · 2021Article
- Rewiring yeast metabolism to synthesize products beyond ethanol.Current opinion in chemical biology · 2020Review
- Corrigendum to "Rewiring yeast metabolism to synthesize products beyond ethanol" [Curr Opin Chem Biol 59 (December 2020) 182-192].Current opinion in chemical biology · 2020Article
- CRISpy-Pop: A Web Tool for Designing CRISPR/Cas9-Driven Genetic Modifications in Diverse Populations.G3 (Bethesda, Md.) · 2020Article
- Synthetic hybrids of six yeast species.Nature communications · 2020Article
- Adaptation to Industrial Stressors Through Genomic and Transcriptional Plasticity in a Bioethanol Producing Fission Yeast Isolate.G3 (Bethesda, Md.) · 2020Article
Corrections and comments
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Authors and funding
15 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The genome sequences of more than 100 strains of the yeast Saccharomyces cerevisiae have been published. Unfortunately, most of these genome assemblies contain dozens to hundreds of gaps at repetitive sequences, including transposable elements, tRNAs, and subtelomeric regions, which is where novel genes generally reside. Relatively few strains have been chosen for genome sequencing based on their biofuel production potential, leaving an additional knowledge gap. Here, we describe the nearly complete genome sequence of GLBRCY22-3 (Y22-3), a strain of S. cerevisiae derived from the stress-tolerant wild strain NRRL YB-210 and subsequently engineered for xylose metabolism. After benchmarking several genome assembly approaches, we developed a pipeline to integrate Pacific Biosciences (PacBio) and Illumina sequencing data and achieved one of the highest quality genome assemblies for any S. cerevisiae strain. Specifically, the contig N50 is 693 kbp, and the sequences of most chromosomes, the mitochondrial genome, and the 2-micron plasmid are complete. Our annotation predicts 92 genes that are not present in the reference genome of the laboratory strain S288c, over 70% of which were expressed. We predicted functions for 43 of these genes, 28 of which were previously uncharacterized and unnamed. Remarkably, many of these genes are predicted to be involved in stress tolerance and carbon metabolism and are shared with a Brazilian bioethanol production strain, even though the strains differ dramatically at most genetic loci. The Y22-3 genome sequence provides an exceptionally high-quality resource for basic and applied research in bioenergy and genetics.
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