Genomic phenotyping of the essential and non-essential yeast genome detects novel pathways for alkylation resistance Public Deposited

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Creator
  • Fry, Rebecca
    • Affiliation: Gillings School of Global Public Health, Department of Environmental Sciences and Engineering
    • Other Affiliation: Biological Engineering Department, Center for Environmental Health Sciences, Biology Department, Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, MA 02139, U.S.A.
Abstract
  • Abstract Background A myriad of new chemicals has been introduced into our environment and exposure to these agents can damage cells and induce cytotoxicity through different mechanisms, including damaging DNA directly. Analysis of global transcriptional and phenotypic responses in the yeast S. cerevisiae provides means to identify pathways of damage recovery upon toxic exposure. Results Here we present a phenotypic screen of S. cerevisiae in liquid culture in a microtiter format. Detailed growth measurements were analyzed to reveal effects on ~5,500 different haploid strains that have either non-essential genes deleted or essential genes modified to generate unstable transcripts. The pattern of yeast mutants that are growth-inhibited (compared to WT cells) reveals the mechanisms ordinarily used to recover after damage. In addition to identifying previously-described DNA repair and cell cycle checkpoint deficient strains, we also identified new functional groups that profoundly affect MMS sensitivity, including RNA processing and telomere maintenance. Conclusions We present here a data-driven method to reveal modes of toxicity of different agents that impair cellular growth. The results from this study complement previous genomic phenotyping studies as we have expanded the data to include essential genes and to provide detailed mutant growth analysis for each individual strain. This eukaryotic testing system could potentially be used to screen compounds for toxicity, to identify mechanisms of toxicity, and to reduce the need for animal testing.
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DOI
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Resource type
  • Article
Rights statement
  • In Copyright
Rights holder
  • J Peter Svensson et al.; licensee BioMed Central Ltd.
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Journal title
  • BMC Systems Biology
Journal volume
  • 5
Journal issue
  • 1
Page start
  • 157
Language
  • English
Is the article or chapter peer-reviewed?
  • Yes
ISSN
  • 1752-0509
Bibliographic citation
  • BMC Systems Biology. 2011 Oct 06;5(1):157
Access
  • Open Access
Publisher
  • BioMed Central Ltd
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