Jin YH~Freedman JH, 2008

Pubmed ID 18437200
Title Global transcriptome and deletome profiles of yeast exposed to transition metals.
Authors Yong Hwan Jin, Paul E Dunlap, Sandra J McBride, Hanan Al-Refai, Pierre R Bushel, Jonathan H Freedman
Abstract A variety of pathologies are associated with exposure to supraphysiological concentrations of essential metals and to non-essential metals and metalloids. The molecular mechanisms linking metal exposure to human pathologies have not been clearly defined. To address these gaps in our understanding of the molecular biology of transition metals, the genomic effects of exposure to Group IB (copper, silver), IIB (zinc, cadmium, mercury), VIA (chromium), and VB (arsenic) elements on the yeast Saccharomyces cerevisiae were examined. Two comprehensive sets of metal-responsive genomic profiles were generated following exposure to equi-toxic concentrations of metal: one that provides information on the transcriptional changes associated with metal exposure (transcriptome), and a second that provides information on the relationship between the expression of approximately 4,700 non-essential genes and sensitivity to metal exposure (deletome). Approximately 22% of the genome was affected by exposure to at least one metal. Principal component and cluster analyses suggest that the chemical properties of the metal are major determinants in defining the expression profile. Furthermore, cells may have developed common or convergent regulatory mechanisms to accommodate metal exposure. The transcriptome and deletome had 22 genes in common, however, comparison between Gene Ontology biological processes for the two gene sets revealed that metal stress adaptation and detoxification categories were commonly enriched. Analysis of the transcriptome and deletome identified several evolutionarily conserved, signal transduction pathways that may be involved in regulating the responses to metal exposure. In this study, we identified genes and cognate signaling pathways that respond to exposure to essential and non-essential metals. In addition, genes that are essential for survival in the presence of these metals were identified. This information will contribute to our understanding of the molecular mechanism by which organisms respond to metal stress, and could lead to an understanding of the connection between environmental stress and signal transduction pathways.
Citation PLoS Genet. 2008; 4:e1000053

Datasets

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Papers Phenotype Conditions Collection Tested mutants Data Details
Jin YH~Freedman JH, 2008 growth (culture turbidity) AgNO3 [20 uM] hom ~4,739 Quantitative only for hits
Jin YH~Freedman JH, 2008 growth (culture turbidity) sodium arsenite [1.25 mM] hom ~4,739 Quantitative only for hits
Jin YH~Freedman JH, 2008 growth (culture turbidity) cadmium chloride [25 uM] hom ~4,739 Quantitative only for hits
Jin YH~Freedman JH, 2008 growth (culture turbidity) CrO3 [900 uM] hom ~4,739 Quantitative only for hits
Jin YH~Freedman JH, 2008 growth (culture turbidity) copper sulphate [7 mM] hom ~4,739 Quantitative only for hits
Jin YH~Freedman JH, 2008 growth (culture turbidity) mercury(II) chloride [49 uM] hom ~4,739 Quantitative only for hits
Jin YH~Freedman JH, 2008 growth (culture turbidity) ZnSO4 [2 mM] hom ~4,739 Quantitative only for hits
Jin YH~Freedman JH, 2008 growth (culture turbidity) AgNO3 [10 uM] hom ~4,739 Quantitative only for hits
Jin YH~Freedman JH, 2008 growth (culture turbidity) sodium arsenite [400 uM] hom ~4,739 Quantitative only for hits
Jin YH~Freedman JH, 2008 growth (culture turbidity) cadmium chloride [5 uM] hom ~4,739 Quantitative only for hits
Jin YH~Freedman JH, 2008 growth (culture turbidity) mercury(II) chloride [19 uM] hom ~4,739 Quantitative only for hits
Jin YH~Freedman JH, 2008 growth (culture turbidity) CrO3 [400 uM] hom ~4,739 Quantitative only for hits
Jin YH~Freedman JH, 2008 growth (culture turbidity) ZnSO4 [1 mM] hom ~4,739 Quantitative only for hits
Jin YH~Freedman JH, 2008 growth (culture turbidity) copper sulphate [5 mM] hom ~4,739 Quantitative only for hits

Curation history

May 31, 2016 Tested strains to request.
May 31, 2016 Data to request.
June 27, 2016 Tested strains requested.
June 27, 2016 Data requested.
Aug. 17, 2016 Tested strains requested.
Aug. 17, 2016 Data requested.
April 25, 2017 Tested strains abandoned.
April 25, 2017 Data abandoned.
April 25, 2017 Data to load.
May 3, 2017 Data loaded.