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TranscriptomicsRNA-seq analysis of E. coli BW25113 during exponential growth on M9 minimal medium supplemented with either glucose, xylose or glucose+xylose (glucose exponential phase)
Escherichia coli strain BW25113 carying the plasmid [pBR322 PihfB-mTagBFP PxylA-mRFP1] was grown on minimal M9 medium with either glucose (15 mM), xylose (18 mM), or a mix of glucose (6 mM) and xylose (11 mM). The scope here was to observe transcriptomic differences on glucose versus xylose and to p...
ORGANISM(S): Escherichia coli K-12 
2026-06-02 | E-MTAB-14542 | biostudies-arrayexpress
TranscriptomicsEffect of acetate during Escherichia coli switch from N-Acetyl Glucosamine to Malate
This experiment was performed to challenge E. coli response to acetate when switched from N-Acetyl Glucosamine (NAG) to malate as the main substrate. Here, E. coli BW25113 strain was grown in M9 medium complemented with 15 mM NAG, The cells were grown to mid-exponential phase in shake flasks at 37...
ORGANISM(S): Escherichia coli K-12 
2026-05-12 | E-MTAB-16650 | biostudies-arrayexpress
TranscriptomicsTranscriptional pattern of E. coli BW25113 and its ptsA, glpK and dhaKLM isogenic mutants growing on DHA (dihydroxyacetone).
Dihydroxyacetone (DHA) is an attractive molecule produced in a wide range of industries . DHA is found among all the kingdoms as an intermediate of various metabolic pathways and can be used as a carbon source by many organisms. The bacterium Escherichia coli is able to grow on DHA as the sole carbo...
ORGANISM(S): Escherichia coli K-12 
2019-06-03 | E-MTAB-7666 | biostudies-arrayexpress
TranscriptomicsTargets of the E. histolytica transcription factor URE3-BP
The E. histolytica transcription factor URE3-BP is a calcium-responsive regulator of two E. histolytica virulence genes, hgl5 and fdx1. URE3-BP was previously identified by a yeast one-hybrid screen of E. histolytica proteins capable of binding to the sequence TATTCTATT (URE3) in the promoter region...
ORGANISM(S): Entamoeba histolytica 
2008-10-14 | E-GEOD-12188 | biostudies-arrayexpress
UnknownDetachment of the RNA degradosome from the inner membrane of Escherichia coli results in a global slowdown of mRNA degradation, proteolysis of RNase E and increased turnover of ribosome-free transcripts.
Not available
S-EPMC6850036 | biostudies-literature
ProteomicsAttachment of the RNA degradosome to the inner cytoplasmic membrane of Escherichia coli prevents wasteful degradation of rRNA intermediates in ribosome assembly.
RNase E, an essential endoribonuclease in Escherichia coli, is the key component of the multienzyme RNA degradosome, which is localized to the inner cytoplasmic membrane. Until now, the reason for membrane localization of RNase E was not known. We have analyzed ribosome assembly in the rneΔMTS strai...
ORGANISM(S): Escherichia coli 
2023-01-16 | PXD038317 | Pride
Ribosome assembly Rnase e Rna degradosome Label-free quantitative proteomics Nanolc-ms/ms 
UnknownPNPase is involved in the coordination of mRNA degradation and expression in stationary phase cells of Escherichia coli.
Not available
S-EPMC6264599 | biostudies-literature
UnknownOcular steroidome in human eyes and in eyes with complex central serous chorioretinopathy (CSCR).
Not available
S-EPMC10465571 | biostudies-literature
TranscriptomicsRole of mRNA stability during bacterial adaptation
Bacterial adaptation involves extensive cellular reorganization. In particular, growth rate adjustments are associated with substantial modifications of gene expression and mRNA abundance. In this work we aimed to assess the role of mRNA degradation during such variations. A genome-wide transcript...
ORGANISM(S): Lactococcus lactis 
2014-06-16 | E-GEOD-43875 | biostudies-arrayexpress
UnknownrRNA loss induced by rifampicin addition in Escherichia coli reflects extraction artifacts rather than in vivo degradation.
Not available
S-EPMC12370953 | biostudies-literature
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