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Welcome to the Pubget Medical Subject Headings (MESH) browser. Click on a topic or subtopic below to explore related papers. In the gold box is the most recent paper about the current MESH term, and below are 20 related papers.
RNA Polymerase II (0):
Recent article
RNA Polymerase II
PLoS Genetics (7)6 2011
Abstract
We show that Saccharomyces cerevisiae NMD mutants accumulate 5'-extended RNAs (CD-CUTs) of many subtelomeric genes. Using the subtelomeric ZRT1 and FIT3 genes activated in response to zinc and iron deficiency, respectively, we show that transcription of these CD-CUTs mediates repression at the bona...
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PMID: 21738494
PDF is available here.
PDF is available here.
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BMC Medical Genomics (4)1 2011
Abstract
We suggest their control by a miRNA dominated feedback loop, which might be linked to the dramatically different miRNA amounts seen between low and high-grade MDS.
The presented results provide novel findings that build a basis of further investigations of diagnostic biomarkers, targ...
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PMID: 21342535
PDF is available here.
PDF is available here.
Abstract
We generated high-resolution maps of homotypic and heterotypic Drosophila H2A.Z (H2Av) nucleosomes. Although homotypic and heterotypic H2A.Z nucleosomes mapped throughout most of the genome, homotypic nucleosomes were enriched and heterotypic nucleosomes were depleted downstream of active promoters...
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PMID: 21057526
PDF is available here.
PDF is available here.
Abstract
We report the crystal structure at 2.4 Å resolution of the amino-terminal domain (residues 30-340) of human symplekin in a ternary complex with the Pol II carboxy-terminal domain (CTD) Ser 5 phosphatase Ssu72 (refs 7, 10-17) and a CTD Ser 5 phosphopeptide. The N-terminal domain of symplekin...
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PMID: 20861839
PDF is available here.
PDF is available here.
Abstract
We show that Ldb1 controls gene expression at multiple levels. Ldb1 stabilizes its erythroid complex partners on β-globin chromatin, even though it is not one of the DNA-binding components. In addition, Ldb1 is necessary for enrichment of key transcriptional components in the locus, including P-TEF...
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PMID: 20570862
PDF is available here.
PDF is available here.
Genetika (Moskva) (46)9 2010
Abstract
We have studied the molecular evolution of two gene families specific for primates: POLR2J of the transcription system and PMS2 of the MMR repair system. The appearance and improvement of the genetic structure in each of the families was shown to strongly correlate with the main stages of the higher...
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PMID: 21061629
PDF is available here.
PDF is available here.
Abstract
I (RPB1) and nuclear ribosomal large subunit (LSU) rDNA gene sequences. Based on the result of this initial screen, 62 collections representing the full range of genetic diversity sampled were subjected to multigene phylogenetic species recognition based on genealogical concordance (GCPSR). The 62-t...
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PMID: 20580850
PDF is available here.
PDF is available here.
Abstract
We describe key aspects of the fundamentals of p53-mediated transcriptional regulation and target gene promoter selectivity....
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PMID: 20679336
PDF is available here.
PDF is available here.
Abstract
We describe key aspects of the fundamentals of p53-mediated transcriptional regulation and target gene promoter selectivity....
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PMID: 20679336
PDF is available here.
PDF is available here.
Molecular Cell (39)2 2010
Abstract
We report that Set3C and Rpd3C(S) are cotranscriptionally recruited in the absence of Set1 and Set2, but in a manner stimulated by Pol II CTD kinase Cdk7/Kin28. Consistently, Rpd3C(S) and Set3C interact with Ser5-phosphorylated Pol II and histones in extracts, but only the histone interactions requi...
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PMID: 20670892
PDF is available here.
PDF is available here.
Nature Reviews: Genetics (11)8 2010
Abstract
The eukaryotic core promoter recognition complex was generally thought to play an essential but passive role in the regulation of gene expression. However, recent evidence now indicates that core promoter recognition complexes together with 'non-prototypical' subunits may have a vital regulatory fun...
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PMID: 20628347
PDF is available here.
PDF is available here.
Abstract
We show by RNAPII chromatin immunoprecipitation (ChIP) that internal operon gene 5' ends do indeed lack Ser-5(P) peaks. In contrast, Ser-2(P) peaks occur at each mRNA 3' end, where the 3'-end formation machinery binds. These results provide additional support for the idea that the serine phosphoryla...
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PMID: 20498277
PDF is available here.
PDF is available here.
Journal of Molecular Biology (400)4 2010
Abstract
We introduce the concept of His-tagged adaptor molecules, which eliminate the need for the target protein or complex to be His-tagged. The use of His-tagged protein A as adaptor molecule allows Affinity Grids to be used for the preparation of virtually any protein or complex provided that a specific...
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PMID: 20562026
PDF is available here.
PDF is available here.
Abstract
We show that an LTR retrotransposon of ERV-9 human endogenous retrovirus located 40-70 kb upstream of the human fetal gamma- and adult beta-globin genes serves a long-range, host function. The ERV-9 LTR contains multiple CCAAT and GATA motifs and competitively recruits a high concentration of NF-Y a...
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PMID: 20615953
PDF is available here.
PDF is available here.
Abstract
We studied the induction and long-term stability of gene reactivation at three methylated tumor suppressor loci in response to the DNA methyltransferase inhibitor 5-aza-2'-deoxycytidine (5-azaCdR) in human breast cancer cells. At the TMS1/ASC locus, treatment with 5-azaCdR resulted in partial DNA de...
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PMID: 20587535
PDF is available here.
PDF is available here.
Biochimica et Biophysica Acta (1804)7 2010
Abstract
We demonstrate that PQBP-1 binds to U5-15kD via a continuous 23-residue segment within its C-terminal domain. Intriguingly, this segment is lost in the frameshift mutants of PQBP-1 associated with X-linked mental retardation. These findings suggest that the frameshift mutations in the PQBP-1 gene le...
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PMID: 20307692
PDF is available here.
PDF is available here.
Cytogenetic and Genome Research (129)1-3 2010
Abstract
Interspecific hybrids between the related wild barley species Hordeum marinum and H. bulbosum were generated and tested regarding their chromosomal stability and chromatin properties. Unlike in H. vulgare x H. bulbosum hybrid embryos, there was no effect of temperature on uniparental chromosome elim...
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PMID: 20551604
PDF is available here.
PDF is available here.
Abstract
We examined the motif 10 element (MTE), which is located downstream of the transcription start site and acts in conjunction with the initiator (Inr). We found that the MTE promotes the binding of purified TFIID to the core promoter and that the TAF6 and TAF9 subunits of TFIID appear to be in close p...
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PMID: 20457814
PDF is available here.
PDF is available here.
Abstract
These results indicate that Arabidopsis SSP gene family encodes active CTD phosphatases like animal SCP1 family proteins, with distinct substrate specificities.
Copyright (c) 2010 Elsevier Inc. All rights reserved....
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PMID: 20513350
PDF is available here.
PDF is available here.
Abstract
We conducted a genetic screen to identify factors required for RNA interference (RNAi) in Caenorhabditis elegans nuclei. Here we show that the gene nuclear RNAi defective-2 (nrde-2) encodes an evolutionarily conserved protein that is required for siRNA-mediated silencing in nuclei. NRDE-2 associates...
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PMID: 20543824
PDF is available here.
PDF is available here.
Abstract
We analyzed the interactions among DSIF, NELF, and a reconstituted Drosophila Pol II elongation complex to gain insight into the mechanism of pausing. Our results show that DSIF and NELF require a nascent transcript longer than 18 nt to stably associate with the Pol II elongation complex. Protein-RN...
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PMID: 20534440
PDF is available here.
PDF is available here.
Abstract
We have shown that nucleosomes can survive transcription by single Pol II complexes in vitro. To study the mechanism of histone displacement from DNA, the encounter between multiple complexes of RNA polymerase and a nucleosome was analyzed in vitro. Multiple transcribing Pol II complexes can efficie...
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PMID: 20534568
PDF is available here.
PDF is available here.
Molecular Cell (38)5 2010
Abstract
We show that CSB contains a ubiquitin-binding domain (UBD). Cells expressing UBD-less CSB (CSB(del)) have phenotypes similar to those of cells lacking CSB, but these can be suppressed by appending a heterologous UBD, so ubiquitin binding is essential for CSB function. Surprisingly, CSB(del) remains...
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PMID: 20541997
PDF is available here.
PDF is available here.
Abstract
A 67-year old patient underwent a kidney biopsy because of newly diagnosed hypertension, haemolytic anemia with fragmentocytes and acute kidney failure requiring dialysis therapy. The biopsy showed thrombotic microangiopathy. Since last winter Raynaud's phenomenon and changes of hands and lips were...
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PMID: 20503137
PDF is available here.
PDF is available here.
Abstract
We cloned the rat dor gene promoter and identified an NGF-responsive region similar to that from the mouse dor gene promoter. We further identified p300, a known NF-kappaB binding partner with intrinsic histone acetyltransferase activity, to be dynamically associated with the dor gene. We also found...
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PMID: 20399742
PDF is available here.
PDF is available here.
Nature Cell Biology (12)6 2010
Abstract
We show that Jarid2 is a novel subunit of PRC2 that is required for the co-recruitment of PRC1 and RNAP to genes that regulate development in ES cells. Jarid2-deficient ES cells showed reduced H3K4me2/me3 and H3K27me3 marking and PRC1/PRC2 recruitment, and did not efficiently establish Ser 5-phospor...
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PMID: 20473294
PDF is available here.
PDF is available here.
Abstract
We report the structure of a transcribing RNA polymerase II (pol II) complex stalled at a site-specific monofunctional pyriplatin-DNA adduct in the active site. The results reveal a molecular mechanism of pol II transcription inhibition and drug action that is dramatically different from transcripti...
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PMID: 20448203
PDF is available here.
PDF is available here.
Genes & Development (24)10 2010
Abstract
We report that PUMA (p53 up-regulated modulator of apoptosis), a key mediator of p53-dependent cell death, is regulated by a noncanonical, gene-specific mechanism. Using chromatin immunoprecipitation assays, we found that the first half of the PUMA locus (approximately 6 kb) is constitutively occupi...
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PMID: 20478995
PDF is available here.
PDF is available here.
Abstract
We show that HIV-1 required signaling by the PRRs Toll-like receptor 8 (TLR8) and DC-SIGN for replication in dendritic cells (DCs). HIV-1 activated the transcription factor NF-kappaB through TLR8 to initiate the transcription of integrated provirus by RNA polymerase II (RNAPII). However, DC-SIGN sig...
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PMID: 20364151
PDF is available here.
PDF is available here.
Abstract
Abstract
We show how SILAC can be combined with computational methods drawn from the business intelligence field for multidimensional data analysis to improve the discrimination between specific and nonspecific protein associations and to analyze dynamic protein complexes. A strategy is shown for developing...
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PMID: 20023298
PDF is available here.
PDF is available here.
PLoS Biology (8)5 2010
Abstract
We have characterized transcription sites located outside protein-coding genes in a highly regulated response, macrophage activation by endotoxin. Using chromatin signatures, we could unambiguously classify extragenic Pol_II binding sites as belonging to either canonical RNA genes or transcribed enh...
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PMID: 20485488
PDF is available here.
PDF is available here.
Cell Cycle (9)9 2010
Abstract
We review how posttranslational modifications regulate the activity of the P-TEFb complex and discuss how acetylation of the complex optimizes transcription elongation in the context of other posttranslational modifications....
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PMID: 20436276
PDF is available here.
PDF is available here.
Abstract
We extend this finding by demonstrating that four of the five RNAPIII-specific subunits are also homologous to transcription factors of RNAPII. We use the available evidence to propose an evolutionary history of the eukaryotic RNAPs and argue that the increases in the number of subunits that occurre...
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PMID: 20026480
PDF is available here.
PDF is available here.
Abstract
We examined genome-wide differences in transcription factor (TF) binding in several humans and a single chimpanzee by using chromatin immunoprecipitation followed by sequencing. The binding sites of RNA polymerase II (PolII) and a key regulator of immune responses, nuclear factor kappaB (p65), were...
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PMID: 20299548
PDF is available here.
PDF is available here.
Abstract
We describe the characterization of AT7519 in leukemia cell lines, and compare and contrast the response in cell lines derived from solid tumors. Finally, we use these mechanistic insights to show activity in peripheral blood mononuclear cells isolated from 16 chronic lymphocytic leukemia patients....
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PMID: 20354122
PDF is available here.
PDF is available here.
Abstract
We propose a fully automated, unsupervised method for the three-dimensional reconstruction of multiple structural models from heterogeneous data. As a starting reference, our method employs an initial structure that does not account for any heterogeneity. Then, a multi-stage clustering is used to cr...
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PMID: 20085819
PDF is available here.
PDF is available here.
Molecular Endocrinology (24)4 2010
Abstract
We present the genome-wide localization analysis of SRC-3 chromatin affinity sites in MCF-7 human breast cancer chromatin and compare the cis binding sites to global cartographies for ER and FoxA1. By correlating their gene proximal binding sites to integrated gene expression signatures, and in comb...
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PMID: 20181721
PDF is available here.
PDF is available here.
Molecular Endocrinology (24)4 2010
Abstract
We investigate the chromatin landscape of the IGF-I gene in the liver of pituitary-deficient young adult male rats and assess the impact of a single systemic GH injection. Despite minimal ongoing transcription in the absence of GH, both IGF-I promoters appear to reside in open chromatin environments...
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PMID: 20160126
PDF is available here.
PDF is available here.
Abstract
Abstract
Abstract
We recently demonstrated that genes with high levels of binding of RNA polymerase II, regardless of transcription levels, are resistant to induction of aberrant methylation. Now, epigenetic destiny can be predicted by these factors and interference with these factors might be able to change the dest...
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PMID: 20160507
PDF is available here.
PDF is available here.
Abstract
As one of the immediate-early (IE) proteins of herpes simplex virus type 1 (HSV-1), ICP22 is a multifunctional viral regulator that localizes in the nucleus of infected cells. It is required in experimental animal systems and some nonhuman cell lines, but not in Vero or HEp-2 cells. ICP22 is extensi...
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PMID: 20960278
PDF is available here.
PDF is available here.
Abstract
Transcription of eukaryotic genes by RNA polymerase II (pol II) is a complex, highly regulated multiphasic process. Pol II pauses in the proximity of the promoter on a large fraction of transcribed genes. Transcription initiation and elongation of transcripts are under distinct control. Induced gene...
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PMID: 20170405
PDF is available here.
PDF is available here.
Genome Research (20)2 2010
Abstract
We sequenced large numbers of insertions using high-throughput pyrosequencing. In four independent experiments we identified a total of 73,125 independent integration events. These data provided strong support for the conclusion that Pol II promoters are the targets of Tf1 integration. The size and...
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PMID: 20040583
PDF is available here.
PDF is available here.
Journal of Virology (84)3 2010
Abstract
Our results suggest that the phosphorylation of SHDAg at Ser177 shifted its affinitytoward the RNAP IIO isoform [corrected] and thus is a switch for HDV antigenomic RNA replication from the initiation to the elongation stage....
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PMID: 19923176
PDF is available here.
PDF is available here.
Abstract
We show here that TGF-beta1 utilizes a previously unknown mechanism targeting the function of prereplication complexes (pre-RCs) to acutely block S-phase entry when added to cells in late G(1), after most G(1) events have occurred. TGF-beta1 treatment in early G(1) suppresses Myc and CycE-Cdk2 and b...
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PMID: 19948884
PDF is available here.
PDF is available here.
Abstract
We show that the Elongator complex was purified from plant cell cultures as a six-component complex. The role of plant Elongator in transcription elongation was supported by colocalization of the HAT enzyme, ELO3, with euchromatin and the phosphorylated form of RNAPII, and reduced histone H3 lysine...
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PMID: 20080602
PDF is available here.
PDF is available here.
Abstract
We discuss recent work on the plant-specific PolII variant enzymes and discuss the mechanistic convergences that have been observed in the role of these enzymes in their respective siRNA-mediated heterochromatin formation pathways....
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PMID: 20173420
PDF is available here.
PDF is available here.
Molecular Vision (16) 2010
Abstract
High-resolution maps of Pol-II binding around transcription start sites were generated for the postnatal mouse retina; which can predict activation increases for a specific gene of interest. Novel gene activation predictions are enriched for biologic functions relevant to vision, neural function, an...
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PMID: 20161818
PDF is available here.
PDF is available here.
Genome Biology (11)5 2010
Abstract
These results, together with several lines of evidence from the recent literature, support a new model whereby the +1 nucleosome could be more efficiently disassembled from gene promoters by H3K56 acetylation marks if the periodic signal specifies an optimal rotational setting....
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PMID: 20462404
PDF is available here.
PDF is available here.
Genome Biology (11)5 2010
Abstract
Our results suggest a division of labor between Isw1 and Isw2, whereby Isw2 maintains repressive chromatin structure at gene ends while Isw1 has a similar function at mid-coding regions. The differential specificity of the two remodelers may be specified through interactions with particular histone...
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PMID: 20459718
PDF is available here.
PDF is available here.
Tilletia puccinelliae, a new species of reticulate-spored bunt fungus infecting Puccinellia distans.
Abstract
A shipment of Fults alkaligrass seed (Puccinellia distans) grown in Washington state containing bunted florets was intercepted by quarantine officials at China's Tianjin Entry-Exit Quarantine and Inspection Bureau. The bunted florets were filled with irregularly shaped, reticulately ornamented telio...
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PMID: 20524594
PDF is available here.
PDF is available here.
Abstract
Our results confirm that V. freycinetiae is distinct from other genera among the Nectria-like fungi and represents a new genus belonging to the Bionectriaceae....
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PMID: 20361508
PDF is available here.
PDF is available here.
Abstract
We propose this new polypore as Cerrena aurantiopora sp. nov....
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PMID: 20120242
PDF is available here.
PDF is available here.
Abstract
The phylogenetic relationships within Coronophorales have been debated because of uncertainty over the taxonomic usefulness of characteristics such as quellkörper, number of ascospores per ascus, presence of ascospore appendages, presence of subiculum and ascomatal vestiture. The phylogenetic relat...
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PMID: 20120241
PDF is available here.
PDF is available here.
Abstract
We studied how Pol II binding and transcriptional repression are controlled by general transcription factors. We found that TFIIF associates with B1 RNA/Pol II and scAlu RNA/Pol II complexes and decreases their kinetic stability. Both subunits of TFIIF are required for this activity. Importantly, fu...
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PMID: 19841064
PDF is available here.
PDF is available here.
Abstract
We characterized several ERalpha-repressed targets and examined in detail the mechanism for estrogen repression of Reprimo (RPRM), a cell cycle inhibitor. Estrogen repression of RPRM is rapid and robust and requires a tripartite interaction between ERalpha, histone deacetylase 7 (HDAC7), and FoxA1....
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PMID: 19917725
PDF is available here.
PDF is available here.
Abstract