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TranscriptomicsTranscription profiling of E. coli wild type and Fur mutant strains ectopically expressing RyhB to investigate global iron use
RyhB is a non-coding RNA regulated by the Fur repressor. It has previously been shown to cause the rapid degradation of a number of mRNAs that encode proteins that utilize iron. Here we examine the effect of ectopic RyhB production on global gene expression by microarray analysis. Many of the pre...
ORGANISM(S): Escherichia coli 
2007-09-21 | E-GEOD-3105 | biostudies-arrayexpress
GenomicsNext Generation Sequencing Facilitates Quantitative Analysis of Wild Type 、 ryhB-1、 ryhB-2、 ryhB-1/ryhB-2 Mutant Strains Transcriptomes
Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type 、 ryhB-1、 ryhB-2、 ryhB-1/ryhB-2 Mutant Strains Transcriptomes
PRJNA828446 | ENA
TranscriptomicsGenome-wide ribosome profiling to identify regulatory targets of small RNA RyhB in E.coli
The effects of RyhB expression were examined by Ribo-seq and RNA-seq after 10 min to avoid indirect effects. Expression of RyhB was induced by arabinose from cells carrying pBAD-ryhB plasmid. The RyhB expression was confirmed by real-time PCR. As a control, cells with vector pNM12 were grown and ind...
ORGANISM(S): Escherichia coli str. K-12 substr. MG1655 
2014-11-01 | E-MTAB-2903 | biostudies-arrayexpress
TranscriptomicsMS2-affinity purification coupled with RNA sequencing (MAPS) reveals RyhB sRNA targetome
Despite the overwhelming information about sRNAs, one of the biggest challenges in the sRNA field is characterizing sRNA targetomes. Thus, we develop a novel method to identify RNAs that interact with a specific sRNA, regardless of the type of regulation (positive or negative) or targets (mRNA, tRNA...
ORGANISM(S): Escherichia coli K-12 
2015-04-16 | E-GEOD-66519 | biostudies-arrayexpress
TranscriptomicsNext Generation Sequencing Facilitates Quantitative Analysis of Wild Type 、 ryhB-1、 ryhB-2、 ryhB-1/ryhB-2 Mutant Strains Transcriptomes
Purpose:To investigate the effect of small RNA RyhB-1and RyhB-2 deletion of Salmonella enteritidis on genes expression of genome under simulated intestinal conditions Methods:S. Enteritidis wild type (WT) strain 50336 and mutants △ryhB-1, △ryhB-2, and △ryhB-1/ryhB-2 were grown overnight in 50 mL of ...
ORGANISM(S): Salmonella enterica subsp. enterica serovar Enteritidis 
2022-04-23 | GSE201112 | GEO
TranscriptomicsRNA-Seq samples of E. coli K12 MG1655, deletion of ryhB sRNA gene, 2,2’-Dipyridy
Bacteria adapt to environmental changes by remodeling their gene expression programs. The change in expression of specific genes is due to the combined effects of various regulators, among them small RNAs (sRNAs). Here we present a straightforward RNA-seq-based approach to infer the contribution of ...
ORGANISM(S): Escherichia coli str. K-12 substr. MG1655 
2022-12-09 | E-MTAB-10502 | biostudies-arrayexpress
TranscriptomicsRNA-seq data of Escheirchia coli K12 MG1655 of overexpression of GcvB, MicA, ArcZ, RyhB or CyaR sRNAs
To study the regulatory outcome of Hfq-mediated sRNA-target interactions, we measured the change in gene expression following overexpression of each of five well-established sRNAs: GcvB, MicA, ArcZ, RyhB and CyaR. For each of the studied sRNAs we applied RNA-seq to two E. coli K-12 MG1655 strains: (...
ORGANISM(S): Escherichia coli str. K-12 substr. MG1655 
2020-03-03 | E-MTAB-8229 | biostudies-arrayexpress
GenomicsThe small RNA RyhB is a regulator of cytochrome expression in Shewanella oneidensis
The small RNA RyhB is a regulator of cytochrome expression in Shewanella oneidensis
PRJNA414224 | ENA
GenomicsGenome-wide ribosome profiling to identify regulatory targets of small RNA RyhB in E.coli
Genome-wide ribosome profiling to identify regulatory targets of small RNA RyhB in E.coli
PRJEB7301 | ENA
TranscriptomicsGlobal Analysis of the Expression of Salmonella RyhB regulon
Analysis of the Expression Change of RyhB Regulon in RyhB-deleted Mutant Strains.
ORGANISM(S): Salmonella enterica subsp. enterica serovar Typhimurium Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S 
2010-01-08 | GSE19813 | GEO
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