Genome-Wide Analysis of Targets for Post-Transcriptional Regulation by Rsm Proteins in Pseudomonas putida

Frontiers in Molecular Biosciences

Manuel Espinosa-Urgel¹  Óscar Huertas-Rosales¹  María Antonia Molina-Henares¹  María Isabel Ramos-González¹  María L. Travieso¹  Kar-Wai Hong³  Kok-Gan Chan³  Stephan Heeb⁴  Miguel Cámara⁴  Laura Barrientos-Moreno⁴  Manuel Romero⁴ 

[1] Department of Environmental Protection, Estación Experimental del Zaidín, CSIC, Granada, Spain;Division of Genetics and Molecular Biology, Institute of Biological Sciences, Faculty of Science, University of Malaya, Kuala Lumpur, Malaysia;International Genome Centre, Jiangsu University, Zhenjiang, China;National Biofilms Innovation Centre, Biodiscovery Institute and School of Life Sciences, University of Nottingham, Nottingham, United Kingdom;

关键词: RNA-binding proteins;    global regulation;    biofilm;    rhizosphere;    amino acid metabolism;    c-di-GMP signaling;   

DOI  :  10.3389/fmolb.2021.624061

来源: DOAJ

【 摘 要 】

Post-transcriptional regulation is an important step in the control of bacterial gene expression in response to environmental and cellular signals. Pseudomonas putida KT2440 harbors three known members of the CsrA/RsmA family of post-transcriptional regulators: RsmA, RsmE and RsmI. We have carried out a global analysis to identify RNA sequences bound in vivo by each of these proteins. Affinity purification and sequencing of RNA molecules associated with Rsm proteins were used to discover direct binding targets, corresponding to 437 unique RNA molecules, 75 of them being common to the three proteins. Relevant targets include genes encoding proteins involved in signal transduction and regulation, metabolism, transport and secretion, stress responses, and the turnover of the intracellular second messenger c-di-GMP. To our knowledge, this is the first combined global analysis in a bacterium harboring three Rsm homologs. It offers a broad overview of the network of processes subjected to this type of regulation and opens the way to define what are the sequence and structure determinants that define common or differential recognition of specific RNA molecules by these proteins.

【 授权许可】

Unknown