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RIP-seq reveals RNAs that interact with RNA polymerase and primary sigma factors in bacteria

V. Vaňková Hausnerová, M. Shoman, D. Kumar, M. Schwarz, M. Modrák, J. Jirát Matějčková, E. Mikesková, S. Neva, A. Herrmannová, M. Šiková, P. Halada, I. Novotná, P. Pajer, LS. Valášek, M. Převorovský, L. Krásný, J. Hnilicová

. 2024 ; 52 (8) : 4604-4626. [pub] 20240508

Jazyk angličtina Země Anglie, Velká Británie

Typ dokumentu časopisecké články, práce podpořená grantem

Perzistentní odkaz   https://www.medvik.cz/link/bmc24013984

Grantová podpora
20-07473S Czech Science Foundation
275823 Charles University
EXCELES LX22NPO5103 European Union - Next Generation EU, National Institute of Virology and Bacteriology
LM2023055 Ministry of Education
CZ.02.1.01/0.0/0.0/18_046/0015974 European Regional Development Fund
907930101413 Ministry of Defense
SVV 260679 Charles University
Czech Academy of Sciences

Bacteria have evolved structured RNAs that can associate with RNA polymerase (RNAP). Two of them have been known so far-6S RNA and Ms1 RNA but it is unclear if any other types of RNAs binding to RNAP exist in bacteria. To identify all RNAs interacting with RNAP and the primary σ factors, we have established and performed native RIP-seq in Bacillus subtilis, Corynebacterium glutamicum, Streptomyces coelicolor, Mycobacterium smegmatis and the pathogenic Mycobacterium tuberculosis. Besides known 6S RNAs in B. subtilis and Ms1 in M. smegmatis, we detected MTS2823, a homologue of Ms1, on RNAP in M. tuberculosis. In C. glutamicum, we discovered novel types of structured RNAs that associate with RNAP. Furthermore, we identified other species-specific RNAs including full-length mRNAs, revealing a previously unknown landscape of RNAs interacting with the bacterial transcription machinery.

Citace poskytuje Crossref.org

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