Escherichia coli
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA309246 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:E. coli MG1655 treated (G181D/R258C NusA) vs control (WT NusA) [I]
| PRJNA309247 | ENA
Project description:Transcription profiling of E. coli MG1655, representing the effect of G181D/R258C NusA in comparison to WT NusA
2016-03-28 | GSE77009 | GEO
Project description:Transcription profiling of E. coli MG1655, representing the effect of G181D/R258C NusA in comparison to WT NusA
2016-03-28 | GSE77008 | GEO
Project description:E. coli MG1655 treated (BCM or WT rho) vs control (vector)
| PRJNA309664 | ENA
Project description:Transcription profiling of E. coli MG1655, representing the effect of G181D/R258C NusA in comparison to WT NusA Agilent one-color experiment,Organism: Escherichia coli ,Agilent Custom Ecoli Gene Expression Microarray 2x400k designed by Genotypic Technology Private Limited. (AMADID:72220)
2016-03-28 | E-GEOD-77009 | biostudies-arrayexpress
Project description:Transcription profiling of E. coli MG1655, representing the effect of G181D/R258C NusA in comparison to WT NusA Agilent one-color experiment,Organism: Escherichia coli ,Agilent Custom Escherichia coli Gene Expression Microarray 8x60K (AMADID: 48792) designed by Genotypic Technology Private Limited. , Labeling kit: Agilent Quick-Amp labeling Kit (p/n5190-0442)
2016-03-28 | E-GEOD-77008 | biostudies-arrayexpress
Project description:E. coli MG1655Δrac treated (N340S/G324D Rho) vs control (WT Rho)
| PRJNA309665 | ENA
Project description:Mapping the occupancy of ArcA throughout the genome of Escherchia coli MG1655 K-12 using an affinity purified antibody under anaerobic and aerobic growth conditions. As a control, we also performed ChIP-chip onArcA in a ∆arcA mutant strain of Escherchia coli MG1655 K-12. Described in the manuscript The response regulator ArcA uses a diverse binding site architechture to globally regulate carbon oxidation in E. coli
2013-10-17 | GSE46413 | GEO
Project description:Despite the prevalence of antisense transcripts in bacterial transcriptomes, little is known about how their synthesis is controlled. We report that a major function of the Escherichia coli termination factor Rho and its co-factor NusG is suppression of ubiquitous antisense transcription genome-wide. Rho binds C-rich unstructured nascent RNA (high C/G ratio) prior to its ATP-dependent dissociation of transcription complexes. NusG is required for efficient termination at minority subsets (~20%) of both antisense and sense Rho-dependent terminators with lower C/G ratio sequences. In contrast, a widely studied nusA deletion proposed to compromise Rho-dependent termination had no effect on antisense or sense Rho-dependent terminators in vivo. Global co-localization of the nucleoid-associated protein H-NS with Rho-dependent terminators and genetic interactions between hns and rho suggest that H-NS aids Rho in suppression of antisense transcription. The combined actions of Rho, NusG, and H-NS appear to be analogous to the Sen1-Nrd1-Nab3 and nucleosome systems that suppress antisense transcription in eukaryotes. Tiling expression microarray experiments were performed in cells treated with 20 ug/ml bicyclomycin or cells deleted for nusG, or a partial deletion of nusA. Labeled cDNAs were hybridized to an E. coli K-12 MG1655 tiling array with overlapping probes at ~12bp spacing across the entire genome. The series contains 14 datasets.
2012-11-01 | E-GEOD-41938 | biostudies-arrayexpress
Project description:Transcription termination factor Rho is essential in enterobacteria. We inhibited Rho activity with bicyclomycin and used microarray experiments to assess Rho function on a genome-wide scale. Rho is a global regulator of gene expression that matches E. coli transcription to translational needs. Remarkably, genes that are most repressed by Rho are prophages and other horizontally-acquired portions of the genome. Elimination of these foreign DNA elements increases resistance to bicyclomycin. Although rho remains essential, such reduced-genome bacteria no longer require Rho cofactors NusA and NusG. Thus, Rho termination, supported by NusA and NusG, is required to suppress the toxic activity of foreign DNA. Global regulation of transcription termination by Rho, NusA, and NusG. Experiment Overall Design: Two sets of experiments are presented. First, treatment of E. coli with Rho inhibitor bicyclomycin was performed in strains MG1655 and O157:H7 EDL933 for twenty minutes at concentrations of 10, 25, or 100 micrograms/milliliter. In the second set of experiments the reduced-genome strain MDS42 was treated with bicyclomycin as well as having deletions of the genes nusA and nusG. Total RNA was extracted and hybridized to the Affymetrix E. coli Genome 2.0 array, which contains complete genome coverage of four strains of E. coli.
2008-06-20 | E-GEOD-10345 | biostudies-arrayexpress