title: Genome-wide mapping of histone modifications and mass spectrometry reveal H4 acetylation bias and H3K36 methylation at gene promoters in fission yeast.
abstract: OBJECTIVE
  To map histone modifications with unprecedented resolution both globally and locus-specifically, and to link modification patterns to gene expression.
  
  
  METHODS
  Using correlations between quantitative mass spectrometry and chromatin immunoprecipitation/microarray analyses, we have mapped histone post-translational modifications in fission yeast (Schizosaccharomyces pombe).
  
  
  RESULTS
  Acetylations at lysine 9, 18 and 27 of histone H3 give the best positive correlations with gene expression in this organism. Using clustering analysis and gene ontology search tools, we identified promoter histone modification patterns that characterize several classes of gene function. For example, gene promoters of genes involved in cytokinesis have high H3K36me2 and low H3K4me2, whereas the converse pattern is found ar promoters of gene involved in positive regulation of the cell cycle. We detected acetylation of H4 preferentially at lysine 16 followed by lysine 12, 8 and 5. Our analysis shows that this H4 acetylation bias in the coding regions is dependent upon gene length and linked to gene expression. Our analysis also reveals a role for H3K36 methylation at gene promoters where it functions in a crosstalk between the histone methyltransferase Set2(KMT3) and the histone deacetylase Clr6, which removes H3K27ac leading to repression of transcription.
  
  
  CONCLUSIONS
  Histone modification patterns could be linked to gene expression in fission yeast.
authors: Karolinska Institutet, Department of Biosciences & Nutrition, Center for Biosciences, Novum, 141 57 Huddinge, Sweden.
authors: Indranil
authors: I
authors: Sinha
authors: Luke
authors: L
authors: Buchanan
authors: Michelle
authors: M
authors: Rönnerblad
authors: Carolina
authors: C
authors: Bonilla
authors: Mickaël
authors: M
authors: Durand-Dubief
authors: Andrej
authors: A
authors: Shevchenko
authors: Michael
authors: M
authors: Grunstein
authors: A Francis
authors: AF
authors: Stewart
authors: Karl
authors: K
authors: Ekwall
mesh_terms: D000107:Acetylation; D015153:Blotting, Western; D047369:Chromatin Immunoprecipitation; D002851:Chromatography, High Pressure Liquid; D016000:Cluster Analysis; D019175:DNA Methylation / Q000235:genetics*; D006657:Histones / Q000378:metabolism*; D013058:Mass Spectrometry; D046228:Microarray Analysis; D011401:Promoter Regions, Genetic / Q000235:genetics*; D012568:Schizosaccharomyces / Q000235:genetics / Q000378:metabolism*
chemical_list: D006657:Histones