Studying the regulons of OmrA and OmrB paralogous small RNAs reveals targets involved in central carbon metabolism and lipogenesis
Abstract
Small regulatory RNAs (sRNAs) are key players in bacterial adaptaFon to stress. They ofen occupy central posiFons in regulatory networks and control the expression of mulFple targets. In a striking example of this, the enterobacterial OmrA and OmrB paralogous sRNAs are known to regulate about ten different targets, with extensive data suggesFng the regulon is in fact much larger. Here we performed transcriptome and proteome analyses and idenFfied more than fifeen new targets of Escherichia coli OmrA and OmrB. We validated several, including genes involved in central carbon metabolism and fajy acid synthesis, among which ppc, actP and fabA. Consistent with a role in carbon metabolism, overproducing OmrA or OmrB inhibited growth on glucose minimal medium. The analysis of suppressor mutants shows that this is due to a decreased carbon flux through the TCA cycle. IncorporaFng other datasets such as RIL-seq, we generated a mulF-omics-based predicFon of target candidates. Together, our results show that OmrA/B base-pair to various regions of their mRNA targets, and therefore likely act through diverse regulatory mechanisms. Hence, this work extends the OmrA and OmrB regulons, establishes an unsuspected connecFon with carbon usage, and shows the benefits of combining global analyses to invesFgate sRNA regulons.
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BibTeX
@misc{korepanov2026studying,
title = {{Studying the regulons of OmrA and OmrB paralogous small RNAs reveals targets involved in central carbon metabolism and lipogenesis}},
author = {Alexey Korepanov and Jonathan Jagodnik and Fanny Quenette and Thao Nguyen Le Lam and Marion Hamon and Jade Mathis de Fromont and Odile Sismeiro and Valentin Gherdol-Nouvion and Alexandre Maes and Maude Guillier},
howpublished = {HAL},
year = {2026},
month = jun,
doi = {10.64898/2026.06.26.734639},
url = {https://hal.science/hal-05740914v1},
note = {CC BY-NC-ND 4.0},
}
RIS
TY - UNPB
TI - Studying the regulons of OmrA and OmrB paralogous small RNAs reveals targets involved in central carbon metabolism and lipogenesis
AU - Alexey Korepanov
AU - Jonathan Jagodnik
AU - Fanny Quenette
AU - Thao Nguyen Le Lam
AU - Marion Hamon
AU - Jade Mathis de Fromont
AU - Odile Sismeiro
AU - Valentin Gherdol-Nouvion
AU - Alexandre Maes
AU - Maude Guillier
PY - 2026
DA - 2026/06/27
PB - HAL
DO - 10.64898/2026.06.26.734639
UR - https://hal.science/hal-05740914v1
AB - Small regulatory RNAs (sRNAs) are key players in bacterial adaptaFon to stress. They ofen occupy central posiFons in regulatory networks and control the expression of mulFple targets. In a striking example of this, the enterobacterial OmrA and OmrB paralogous sRNAs are known to regulate about ten different targets, with extensive data suggesFng the regulon is in fact much larger. Here we performed transcriptome and proteome analyses and idenFfied more than fifeen new targets of Escherichia coli OmrA and OmrB. We validated several, including genes involved in central carbon metabolism and fajy acid synthesis, among which ppc, actP and fabA. Consistent with a role in carbon metabolism, overproducing OmrA or OmrB inhibited growth on glucose minimal medium. The analysis of suppressor mutants shows that this is due to a decreased carbon flux through the TCA cycle. IncorporaFng other datasets such as RIL-seq, we generated a mulF-omics-based predicFon of target candidates. Together, our results show that OmrA/B base-pair to various regions of their mRNA targets, and therefore likely act through diverse regulatory mechanisms. Hence, this work extends the OmrA and OmrB regulons, establishes an unsuspected connecFon with carbon usage, and shows the benefits of combining global analyses to invesFgate sRNA regulons.
ER -