title: Global transcriptome and deletome profiles of yeast exposed to transition metals.
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.
authors.affiliation: Nicholas School of the Environment and Earth Sciences, Duke University, Durham, North Carolina, United States of America.
authors.forename: Yong Hwan
authors.initials: YH
authors.lastname: Jin
authors.forename: Paul E
authors.initials: PE
authors.lastname: Dunlap
authors.forename: Sandra J
authors.initials: SJ
authors.lastname: McBride
authors.forename: Hanan
authors.initials: H
authors.lastname: Al-Refai
authors.forename: Pierre R
authors.initials: PR
authors.lastname: Bushel
authors.forename: Jonathan H
authors.initials: JH
authors.lastname: Freedman
mesh_terms: D016000:Cluster Analysis; D004785:Environmental Pollutants / Q000633:toxicity; D017353:Gene Deletion; D015870:Gene Expression / Q000187:drug effects; D020869:Gene Expression Profiling; D005800:Genes, Fungal / Q000187:drug effects; D016681:Genome, Fungal / Q000235:genetics*; D005810:Multigene Family / Q000187:drug effects; D020411:Oligonucleotide Array Sequence Analysis; D025341:Principal Component Analysis; D012441:Saccharomyces cerevisiae / Q000187:drug effects* / Q000235:genetics*; D015398:Signal Transduction / Q000187:drug effects; D028561:Transition Elements / Q000633:toxicity*
chemical_list: D004785:Environmental Pollutants; D028561:Transition Elements