title: Nucleosome organization in the Drosophila genome.
abstract: Comparative genomics of nucleosome positions provides a powerful means for understanding how the organization of chromatin and the transcription machinery co-evolve. Here we produce a high-resolution reference map of H2A.Z and bulk nucleosome locations across the genome of the fly Drosophila melanogaster and compare it to that from the yeast Saccharomyces cerevisiae. Like Saccharomyces, Drosophila nucleosomes are organized around active transcription start sites in a canonical -1, nucleosome-free region, +1 arrangement. However, Drosophila does not incorporate H2A.Z into the -1 nucleosome and does not bury its transcriptional start site in the +1 nucleosome. At thousands of genes, RNA polymerase II engages the +1 nucleosome and pauses. How the transcription initiation machinery contends with the +1 nucleosome seems to be fundamentally different across major eukaryotic lines.
authors.affiliation: Center for Gene Regulation, Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, Pennsylvania 16802, USA.
authors.forename: Travis N
authors.initials: TN
authors.lastname: Mavrich
authors.forename: Cizhong
authors.initials: C
authors.lastname: Jiang
authors.forename: Ilya P
authors.initials: IP
authors.lastname: Ioshikhes
authors.forename: Xiaoyong
authors.initials: X
authors.lastname: Li
authors.forename: Bryan J
authors.initials: BJ
authors.lastname: Venters
authors.forename: Sara J
authors.initials: SJ
authors.lastname: Zanton
authors.forename: Lynn P
authors.initials: LP
authors.lastname: Tomsho
authors.forename: Ji
authors.initials: J
authors.lastname: Qi
authors.forename: Robert L
authors.initials: RL
authors.lastname: Glaser
authors.forename: Stephan C
authors.initials: SC
authors.lastname: Schuster
authors.forename: David S
authors.initials: DS
authors.lastname: Gilmour
authors.forename: Istvan
authors.initials: I
authors.lastname: Albert
authors.forename: B Franklin
authors.initials: BF
authors.lastname: Pugh
mesh_terms: D000818:Animals; D017124:Conserved Sequence / Q000235:genetics; D004331:Drosophila melanogaster / Q000196:embryology / Q000201:enzymology / Q000235:genetics*; D005786:Gene Expression Regulation / Q000235:genetics; D017344:Genes, Insect / Q000235:genetics; D049750:Genome, Insect / Q000235:genetics*; D006657:Histones / Q000378:metabolism; D009707:Nucleosomes / Q000235:genetics* / Q000378:metabolism*; D011401:Promoter Regions, Genetic / Q000235:genetics; D012319:RNA Polymerase II / Q000378:metabolism; D012441:Saccharomyces cerevisiae / Q000235:genetics; D024363:Transcription Initiation Site; D014158:Transcription, Genetic / Q000235:genetics
chemical_list: D006657:Histones; D009707:Nucleosomes; D012319:RNA Polymerase II