title: Changes in global gene expression in response to chemical and genetic perturbation of chromatin structure.
abstract: DNA methylation is important for controlling gene expression in all eukaryotes. Microarray analysis of mutant and chemically-treated Arabidopsis thaliana seedlings with reduced DNA methylation revealed an altered gene expression profile after treatment with the DNA methylation inhibitor 5-aza-2' deoxycytidine (5-AC), which included the upregulation of expression of many transposable elements. DNA damage-response genes were also coordinately upregulated by 5-AC treatment. In the ddm1 mutant, more specific changes in gene expression were observed, in particular for genes predicted to encode transposable elements in centromeric and pericentromeric locations. These results confirm that DDM1 has a very specific role in maintaining transcriptional silence of transposable elements, while chemical inhibitors of DNA methylation can affect gene expression at a global level.
authors.affiliation: Howard Hughes Medical Institute, Department of Molecular Genetics and Cell Biology, University of Chicago, Chicago, Illinois, United States of America.
authors.forename: Karen
authors.initials: K
authors.lastname: Hudson
authors.forename: Song
authors.initials: S
authors.lastname: Luo
authors.forename: Nicole
authors.initials: N
authors.lastname: Hagemann
authors.forename: Daphne
authors.initials: D
authors.lastname: Preuss
mesh_terms: D017360:Arabidopsis / Q000166:cytology / Q000187:drug effects* / Q000235:genetics* / Q000378:metabolism; D029681:Arabidopsis Proteins / Q000235:genetics / Q000378:metabolism; D001374:Azacitidine / Q000031:analogs & derivatives / Q000494:pharmacology; D002843:Chromatin / Q000187:drug effects* / Q000235:genetics* / Q000378:metabolism; D004249:DNA Damage / Q000235:genetics; D019175:DNA Methylation / Q000187:drug effects / Q000235:genetics; D004251:DNA Transposable Elements / Q000235:genetics; D004268:DNA-Binding Proteins / Q000235:genetics / Q000378:metabolism; D000077209:Decitabine; D020869:Gene Expression Profiling; D009154:Mutation; D020411:Oligonucleotide Array Sequence Analysis; D036226:Seedlings / Q000166:cytology / Q000187:drug effects / Q000235:genetics / Q000378:metabolism; D013379:Substrate Specificity; D014157:Transcription Factors / Q000235:genetics / Q000378:metabolism; D014158:Transcription, Genetic / Q000187:drug effects / Q000235:genetics; D015854:Up-Regulation / Q000187:drug effects / Q000235:genetics
chemical_list: D029681:Arabidopsis Proteins; D002843:Chromatin; C118957:DDM1 protein, Arabidopsis; D004251:DNA Transposable Elements; D004268:DNA-Binding Proteins; D014157:Transcription Factors; D000077209:Decitabine; D001374:Azacitidine