ArticlePLoS genetics2018
Genome-wide association across Saccharomyces cerevisiae strains reveals substantial variation in underlying gene requirements for toxin tolerance.
Article in PLoS genetics, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 papers.
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Who cites it
36 citing papers in PubMed.
- Article
- From Oak to Wine: Evolution, Admixture, and Adaptation of California and British Columbia Saccharomyces Cerevisiae Wine Strains.Genome biology and evolution · 2026Article
- Population-scale chemical response revealed by a barcoded yeast collection.Nature communications · 2026Article
- Chimeric reference panels for genomic imputation.Genetics · 2026Article
- Biological parts in yeast synthetic biology: from regulatory elements to predictive design platforms.FEMS yeast research · 2026Review
- From one genome to thousands, and beyond.FEMS yeast research · 2026Review
- Chromosome duplication causes premature aging via defects in ribosome quality control.PLoS biology · 2025Article
- Mechanisms and Strategies for Engineering Oxidative Stress Resistance inChem & bio engineering · 2025Review
- Premature aging in aneuploid yeast is caused in part by aneuploidy-induced defects in Ribosome Quality Control.bioRxiv : the preprint server for biology · 2024Article
- Article
- Metabolic engineering of a stable haploid strain derived from lignocellulosic inhibitor tolerant Saccharomyces cerevisiae natural isolate YB-2625.Biotechnology for biofuels and bioproducts · 2023Article
- Gene-by-environment interactions influence the fitness cost of gene copy-number variation in yeast.G3 (Bethesda, Md.) · 2023Article
- High quality de novo genome assembly of the non-conventional yeast Kazachstania bulderi describes a potential low pH production host for biorefineries.Communications biology · 2023Article
- Gene-by-environment interactions influence the fitness cost of gene copy-number variation in yeast.bioRxiv : the preprint server for biology · 2023Article
- Genomic and Molecular Identification of Genes Contributing to the Caspofungin Paradoxical Effect inMicrobiology spectrum · 2022Article
- High-throughput approaches to functional characterization of genetic variation in yeast.Current opinion in genetics & development · 2022Review
- Extensive simulations assess the performance of genome-wide association mapping in variousPhilosophical transactions of the Royal Society of London. Series B, Biological sciences · 2022Article
- Population genomics provides insights into the genetic basis of adaptive evolution in the mushroom-forming fungusJournal of advanced research · 2022Article
- Strategies to increase tolerance and robustness of industrial microorganisms.Synthetic and systems biotechnology · 2022Article
- Variation of the response to metal ions and nonsense-mediated mRNA decay across different Saccharomyces cerevisiae genetic backgrounds.Yeast (Chichester, England) · 2021Article
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Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Cellulosic plant biomass is a promising sustainable resource for generating alternative biofuels and biochemicals with microbial factories. But a remaining bottleneck is engineering microbes that are tolerant of toxins generated during biomass processing, because mechanisms of toxin defense are only beginning to emerge. Here, we exploited natural diversity in 165 Saccharomyces cerevisiae strains isolated from diverse geographical and ecological niches, to identify mechanisms of hydrolysate-toxin tolerance. We performed genome-wide association (GWA) analysis to identify genetic variants underlying toxin tolerance, and gene knockouts and allele-swap experiments to validate the involvement of implicated genes. In the process of this work, we uncovered a surprising difference in genetic architecture depending on strain background: in all but one case, knockout of implicated genes had a significant effect on toxin tolerance in one strain, but no significant effect in another strain. In fact, whether or not the gene was involved in tolerance in each strain background had a bigger contribution to strain-specific variation than allelic differences. Our results suggest a major difference in the underlying network of causal genes in different strains, suggesting that mechanisms of hydrolysate tolerance are very dependent on the genetic background. These results could have significant implications for interpreting GWA results and raise important considerations for engineering strategies for industrial strain improvement.
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