Combined Transcriptomic and Proteomic Profiling of under Microaerobic versus Aerobic Conditions: The Multifaceted Roles of Noncoding Small RNAs and Oxygen-Dependent Sensing in Global Gene Expression Control.

Adaptive mechanisms that facilitate intestinal colonization by the human microbiota, including , may be better understood by analyzing the physiology and gene expression of bacteria in low-oxygen environments. We used high-throughput transcriptomics and proteomics to compare the expression profiles of grown under aerobic versus microaerobic conditions. Clustering of high-abundance transcripts under microaerobiosis highlighted genes controlling acid-stress adaptation (, , and operons), cell adhesion/biofilm formation ( and operons), electron transport (), oligopeptide transport (), and anaerobic respiration/fermentation ( and operons).

Correction to: Reprogramming of gene expression in Escherichia coli cultured on pyruvate versus glucose.

The article Reprogramming of.

Reprogramming of gene expression in Escherichia coli cultured on pyruvate versus glucose.

Previous studies revealed important roles of small RNAs (sRNAs) in regulation of bacterial metabolism, stress responses and virulence. However, only a minor fraction of sRNAs is well characterized with respect to the spectra of their targets, conditional expression profiles and actual mechanisms they use to regulate gene expression to control particular biological pathways. To learn more about the specific contribution of sRNAs to the global regulatory network controlling the Escherichia coli central carbon metabolism (CCM), we employed microarray analysis and compared transcriptome profiles of E.

Isolation of Pseudomonas fluorescens species highly resistant to pentachlorobenzene.

Polychlorinated aromatic compounds, including pentachlorobenzenes and hexachlorobenzenes, are recalcitrant industrial pollutants that cause adverse effects on living cells. In this paper, the isolation of Pseudomonas fluorescens species with high resistance to pentachlorobenzene (PeCB) is reported. It was found that, in contrast to its slightly negative effect on P.

Selective translation of leaderless mRNAs by specialized ribosomes generated by MazF in Escherichia coli.

Escherichia coli (E. coli) mazEF is a stress-induced toxin-antitoxin (TA) module. The toxin MazF is an endoribonuclease that cleaves single-stranded mRNAs at ACA sequences.

An unexpected type of ribosomes induced by kasugamycin: a look into ancestral times of protein synthesis?

Translation of leaderless mRNAs, lacking ribosomal recruitment signals other than the 5'-terminal AUG-initiating codon, occurs in all three domains of life. Contemporary leaderless mRNAs may therefore be viewed as molecular fossils resembling ancestral mRNAs. Here, we analyzed the phenomenon of sustained translation of a leaderless mRNA in the presence of the antibiotic kasugamycin.