A 3' UTR-derived small RNA connecting nitrogen and carbon metabolism in enteric bacteria.
Lauren R WallingAndrew B KouseSvetlana A ShabalinaHongen ZhangGisela StorzPublished in: Nucleic acids research (2022)
Increasing numbers of small, regulatory RNAs (sRNAs) corresponding to 3' untranslated regions (UTR) are being discovered in bacteria. One such sRNA, denoted GlnZ, corresponds to the 3' UTR of the Escherichia coli glnA mRNA encoding glutamine synthetase. Several forms of GlnZ, processed from the glnA mRNA, are detected in cells growing with limiting ammonium. GlnZ levels are regulated transcriptionally by the NtrC transcription factor and post-transcriptionally by RNase III. Consistent with the expression, E. coli cells lacking glnZ show delayed outgrowth from nitrogen starvation compared to wild type cells. Transcriptome-wide RNA-RNA interactome datasets indicated that GlnZ binds to multiple target RNAs. Immunoblots and assays of fusions confirmed GlnZ-mediated repression of glnP and sucA, encoding proteins that contribute to glutamine transport and the citric acid cycle, respectively. Although the overall sequences of GlnZ from E. coli K-12, Enterohemorrhagic E. coli and Salmonella enterica have significant differences due to various sequence insertions, all forms of the sRNA were able to regulate the two targets characterized. Together our data show that GlnZ impacts growth of E. coli under low nitrogen conditions by modulating genes that affect carbon and nitrogen flux.
Keyphrases
- escherichia coli
- induced apoptosis
- transcription factor
- cell cycle arrest
- signaling pathway
- wild type
- gene expression
- rna seq
- endoplasmic reticulum stress
- genome wide
- cell death
- high throughput
- cystic fibrosis
- oxidative stress
- binding protein
- multidrug resistant
- electronic health record
- biofilm formation
- pseudomonas aeruginosa
- nucleic acid
- ionic liquid
- pi k akt
- deep learning
- data analysis
- amino acid
- candida albicans