Abstract:
:Unusually for a eukaryote, genes transcribed by RNA polymerase II (pol II) in Trypanosoma brucei are arranged in polycistronic transcription units. With one exception, no pol II promoter motifs have been identified, and how transcription is initiated remains an enigma. T. brucei has four histone variants: H2AZ, H2BV, H3V, and H4V. Using chromatin immunoprecipitation (ChIP) and sequencing (ChIP-seq) to examine the genome-wide distribution of chromatin components, we show that histones H4K10ac, H2AZ, H2BV, and the bromodomain factor BDF3 are enriched up to 300-fold at probable pol II transcription start sites (TSSs). We also show that nucleosomes containing H2AZ and H2BV are less stable than canonical nucleosomes. Our analysis also identifies >60 unexpected TSS candidates and reveals the presence of long guanine runs at probable TSSs. Apparently unique to trypanosomes, additional histone variants H3V and H4V are enriched at probable pol II transcription termination sites. Our findings suggest that histone modifications and histone variants play crucial roles in transcription initiation and termination in trypanosomes and that destabilization of nucleosomes by histone variants is an evolutionarily ancient and general mechanism of transcription initiation, demonstrated in an organism in which general pol II transcription factors have been elusive.
journal_name
Genes Devjournal_title
Genes & developmentauthors
Siegel TN,Hekstra DR,Kemp LE,Figueiredo LM,Lowell JE,Fenyo D,Wang X,Dewell S,Cross GAdoi
10.1101/gad.1790409subject
Has Abstractpub_date
2009-05-01 00:00:00pages
1063-76issue
9eissn
0890-9369issn
1549-5477pii
gad.1790409journal_volume
23pub_type
杂志文章abstract::Pancreatic ductal adenocarcinoma (PDA) develops predominantly through pancreatic intraepithelial neoplasia (PanIN) and intraductal papillary mucinous neoplasm (IPMN) precursor lesions. Pancreatic acinar cells are reprogrammed to a "ductal-like" state during PanIN-PDA formation. Here, we demonstrate a parallel mechanis...
journal_title:Genes & development
pub_type: 杂志文章
doi:10.1101/gad.256628.114
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journal_title:Genes & development
pub_type: 杂志文章
doi:
更新日期:2000-03-15 00:00:00
abstract::The incorporation of histone H1 into chromatin during embryogenesis directs the specific repression of the Xenopus oocyte 5S rRNA genes. An increase in histone H1 content specifically restricts TFIIIA-activated transcription, and a decrease in histone H1 within chromatin facilitates the activation of the oocyte 5S rRN...
journal_title:Genes & development
pub_type: 杂志文章
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更新日期:1994-05-15 00:00:00
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journal_title:Genes & development
pub_type: 杂志文章
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journal_title:Genes & development
pub_type: 杂志文章
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journal_title:Genes & development
pub_type: 杂志文章
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journal_title:Genes & development
pub_type: 杂志文章
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abstract::Far1p is a bifunctional protein that is required to arrest the cell cycle and to establish cell polarity during yeast mating. Far1p is localized predominantly in the nucleus but accumulates in the cytoplasm in cells exposed to pheromones. Here we show that Far1p functions in both subcellular compartments: nuclear Far1...
journal_title:Genes & development
pub_type: 杂志文章
doi:10.1101/gad.13.17.2284
更新日期:1999-09-01 00:00:00
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journal_title:Genes & development
pub_type: 杂志文章
doi:10.1101/gad.11.8.1023
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journal_title:Genes & development
pub_type: 杂志文章
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更新日期:1998-06-15 00:00:00
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journal_title:Genes & development
pub_type: 杂志文章
doi:10.1101/gad.11.3.383
更新日期:1997-02-01 00:00:00
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journal_title:Genes & development
pub_type: 杂志文章
doi:10.1101/gad.1790709
更新日期:2009-07-01 00:00:00
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journal_title:Genes & development
pub_type: 杂志文章
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更新日期:2020-03-01 00:00:00
abstract::Chromatin-modifying enzymes are known to be critical components for the correct differentiation of embryonic stem cells into specific lineages, such as neurons. Recently, the role of Polycomb group proteins has been studied in the specification and differentiation of muscle stem cells. In this perspective, we review a...
journal_title:Genes & development
pub_type: 评论,杂志文章
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更新日期:2011-05-15 00:00:00
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journal_title:Genes & development
pub_type: 杂志文章
doi:10.1101/gad.391106
更新日期:2006-11-01 00:00:00
abstract::X. laevis stage VI oocytes respond differently from unfertilized eggs when injected with the genes for X. laevis embryonic U1 RNAs, xU1b1, and xU1b2. Upon maturation of oocytes into eggs, the efficiency of transcription decreases greatly and the ratio of xU1b1 to xU1b2 RNA transcription changes. Moreover, DNA replicat...
journal_title:Genes & development
pub_type: 杂志文章
doi:10.1101/gad.1.1.47
更新日期:1987-03-01 00:00:00
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journal_title:Genes & development
pub_type: 杂志文章
doi:10.1101/gad.12.2.198
更新日期:1998-01-15 00:00:00
abstract::Eukaryotic translation initiation begins with ribosomal recruitment of aminoacylated initiator tRNA (Met-tRNA(Met)(i)) by eukaryotic initiation factor eIF2. In cooperation with eIF3, eIF1, and eIF1A, Met-tRNA(Met)(i)/eIF2/GTP binds to 40S subunits yielding 43S preinitiation complexes that attach to the 5'-terminal reg...
journal_title:Genes & development
pub_type: 杂志文章
doi:10.1101/gad.1957510
更新日期:2010-08-15 00:00:00
abstract::Our laboratory has been utilizing the Escherichia coli outer membrane protein LamB to study the mechanism of protein localization. Various lines of evidence suggest that, in addition to a signal sequence, regions within the mature protein are required for efficient localization. In particular, studies using LamB-LacZ ...
journal_title:Genes & development
pub_type: 杂志文章
doi:10.1101/gad.1.2.185
更新日期:1987-04-01 00:00:00
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journal_title:Genes & development
pub_type: 杂志文章
doi:10.1101/gad.1267105
更新日期:2005-02-15 00:00:00
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journal_title:Genes & development
pub_type: 杂志文章
doi:10.1101/gad.1661708
更新日期:2008-07-15 00:00:00
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journal_title:Genes & development
pub_type: 杂志文章
doi:10.1101/gad.346205
更新日期:2005-09-15 00:00:00
abstract::RNase MRP is a ribonucleoprotein endoribonuclease that has been shown to cleave mitochondrial primer RNA sequences from a variety of sources. Most of the RNase MRP activity is found in the nucleus where it plays a role in the processing of 5.8S rRNA. A temperature-conditional point mutation in the yeast RNA component ...
journal_title:Genes & development
pub_type: 杂志文章
doi:10.1101/gad.8.21.2617
更新日期:1994-11-01 00:00:00
abstract::Signaling by the hormones brassinosteroid (BR) and gibberellin (GA) is critical to normal plant growth and development and is required for hypocotyl elongation in response to dark and elevated temperatures. Active BR signaling is essential for GA promotion of hypocotyl growth and suppresses the dwarf phenotype of GA m...
journal_title:Genes & development
pub_type: 杂志文章
doi:10.1101/gad.243675.114
更新日期:2014-08-01 00:00:00
abstract::The dihydrofolate reductase (DHFR) and 2BE2121 genes in the Chinese hamster are convergently transcribed in late G1 and ea ly S phase, and bracket an early-firing origin of replication that consists of a 55-kb zone of potential initiation sites. To test whether transcription through the DHFR gene is required to activa...
journal_title:Genes & development
pub_type: 杂志文章
doi:10.1101/gad.1171404
更新日期:2004-02-15 00:00:00
abstract::The WD40 domain-containing protein WRAP53β (WD40 encoding RNA antisense to p53; also referred to as WDR79/TCAB1) controls trafficking of splicing factors and the telomerase enzyme to Cajal bodies, and its functional loss has been linked to carcinogenesis, premature aging, and neurodegeneration. Here, we identify WRAP5...
journal_title:Genes & development
pub_type: 杂志文章
doi:10.1101/gad.246546.114
更新日期:2014-12-15 00:00:00
abstract::VASA is an evolutionarily conserved RNA helicase essential for germ cell development. The mouse PIWI family proteins MILI and MIWI2 are involved in production of Piwi-interacting RNAs (piRNAs) in fetal male germ cells through a ping-pong amplification cycle. Expression of retrotransposons is elevated in MILI- and MIWI...
journal_title:Genes & development
pub_type: 杂志文章
doi:10.1101/gad.1902110
更新日期:2010-05-01 00:00:00
abstract::Organization into polarized three-dimensional structures defines whether epithelial cells are normal or malignant. In a model of morphogenesis, we show that inhibiting key signaling pathways in human breast cancer cells leads to "phenotypic reversion" of the malignant cells. Using architecture as an endpoint, we repor...
journal_title:Genes & development
pub_type: 杂志文章
doi:10.1101/gad.1990410
更新日期:2010-12-15 00:00:00
abstract::We have studied the effect of exogenous expression of the basal transcription factor TFIID on the activities of several different TATA-containing and TATA-lacking promoters. Overexpression of TFIID from a transfected plasmid in Drosophila Schneider cells resulted in substantial concentration-dependent increases in exp...
journal_title:Genes & development
pub_type: 杂志文章
doi:10.1101/gad.6.2.304
更新日期:1992-02-01 00:00:00
abstract::The spectrum of tumors associated with oncogenic Ras in humans often differs from those in mice either treated with carcinogens or engineered to sporadically express oncogenic Ras, suggesting that the mechanism of Ras transformation may be different in humans. Ras stimulates primarily three main classes of effector pr...
journal_title:Genes & development
pub_type: 杂志文章,评审
doi:10.1101/gad.993902
更新日期:2002-08-15 00:00:00