Selective RNA Processing and Stabilization are Multi-Layer and Stoichiometric Regulators of Gene Expression in Escherichia coli.
selective RNA processing and stabilization
simultaneous 5′ and 3′ end sequencing
stem-loop structure
stoichiometric regulation
targetome
Journal
Advanced science (Weinheim, Baden-Wurttemberg, Germany)
ISSN: 2198-3844
Titre abrégé: Adv Sci (Weinh)
Pays: Germany
ID NLM: 101664569
Informations de publication
Date de publication:
11 2023
11 2023
Historique:
revised:
29
08
2023
received:
06
03
2023
medline:
27
11
2023
pubmed:
17
10
2023
entrez:
16
10
2023
Statut:
ppublish
Résumé
Selective RNA processing and stabilization (SRPS) facilitates the differential expression of multiple genes in polycistronic operons. However, how the coordinated actions of SRPS-related enzymes affect stoichiometric regulation remains unclear. In the present study, the first genome-wide targetome analysis is reported of these enzymes in Escherichia coli, at a single-nucleotide resolution. A strictly linear relationship is observed between the RNA pyrophosphohydrolase processing ratio and scores assigned to the first three nucleotides of the primary transcript. Stem-loops associated with PNPase targetomes exhibit a folding free energy that is negatively correlated with the termination ratio of PNPase at the 3' end. More than one-tenth of the RNase E processing sites in the 5'-untranslated regions（UTR） form different stem-loops that affect ribosome-binding and translation efficiency. The effectiveness of the SRPS elements is validated using a dual-fluorescence reporter system. The findings highlight a multi-layer and quantitative regulatory method for optimizing the stoichiometric expression of genes in bacteria and promoting the application of SRPS in synthetic biology.
Identifiants
pubmed: 37845007
doi: 10.1002/advs.202301459
pmc: PMC10667835
doi:
Substances chimiques
Escherichia coli Proteins
0
Polyribonucleotide Nucleotidyltransferase
EC 2.7.7.8
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
e2301459Subventions
Organisme : National Natural Science Foundation of China
ID : 31970113
Organisme : National Natural Science Foundation of China
ID : 32170065
Organisme : Key Research and Development Program of Shandong Province
ID : 2020ZLYS04
Informations de copyright
© 2023 The Authors. Advanced Science published by Wiley-VCH GmbH.
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