Critical factors for precise and efficient RNA cleavage by RNase Y inStaphylococcus aureus DOI Open Access
Alexandre Le Scornet, Ambre Jousselin,

Kamila Baumas

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2023, Volume and Issue: unknown

Published: Aug. 22, 2023

Abstract Cellular processes require precise and specific gene regulation, in which continuous mRNA degradation is a major element. The mechanisms should be able to degrade wide range of different RNA substrates with high efficiency, but at the same time limited, avoid killing cell by elimination all cellular RNA. RNase Y endoribonuclease found most Firmicutes, including Bacillus subtilis Staphylococcus aureus . However, molecular interactions that direct cleave correct molecules position remain unknown. In this work we have identified transcripts are homologs S. B. , targets both bacteria. Two such transcript pairs were used as models show functional overlap between Y, highlighted importance nucleotide sequence molecule itself targeting process. Cleavage efficiency driven primary immediately downstream cleavage site base-pairing secondary structure few nucleotides downstream. positioning roughly localised fine-tuned upstream cleavage. elements sufficient for Y-dependent cleavage, since from one model convert an exogenous non-target into target Y. Author summary order correctly regulate level RNAs, bacteria their continuously synthesised degraded. even related bacterial species can sets ribonucleases, each own criteria. Here explore important being targeted endoribonuclese two bacteria, We specifically examine dependent identify short single-stranded regions modified change up 20-fold. furthermore discover required modulated moving structure.

Language: Английский

Interplay of two small RNAs fine-tunes hierarchical flagella gene expression in Campylobacter jejuni DOI Creative Commons
Fabian König, Sarah L. Svensson, Cynthia M. Sharma

et al.

Nature Communications, Journal Year: 2024, Volume and Issue: 15(1)

Published: June 19, 2024

Abstract Like for many bacteria, flagella are crucial Campylobacter jejuni motility and virulence. Biogenesis of the flagellar machinery requires hierarchical transcription early, middle (RpoN-dependent), late (FliA-dependent) genes. However, little is known about post-transcriptional regulation biogenesis by small RNAs (sRNAs). Here, we characterized two sRNAs with opposing effects on C. filament assembly motility. We demonstrate that CJnc230 sRNA (FlmE), encoded downstream hook protein, processed from RpoN-dependent flgE mRNA RNase III, Y, PNPase. identify mRNAs encoding a flagella-interaction regulator anti-sigma factor FlgM as direct targets repression. overexpression upregulates genes, including flagellin flaA , culminating in longer increased In contrast, FliA-dependent CJnc170 (FlmR) reduces length Overall, our study demonstrates how interplay post-transcriptionally fine-tunes through balancing hierarchically-expressed components.

Language: Английский

Citations

7
Unconventional mRNA processing and degradation pathways for the polycistronic yrzI (spyTA) mRNA in Bacillus subtilis DOI Creative Commons

Laetitia Gilet,

Magali Leroy,

Alexandre Maes

et al.

FEBS Letters, Journal Year: 2025, Volume and Issue: unknown

Published: March 8, 2025

The ribosome-associated endoribonuclease Rae1 cleaves the Bacillus subtilis yrzI operon mRNA in a translation-dependent manner. This encodes up to four small peptides, S1027, YrzI, S1025, and S1024, whose functions are unknown. Here, we identified function of YrzI S1025 deciphered degradation pathways polycistronic mRNA. We show that is toxic at high concentrations, but co-expression with abolishes its toxicity, that, absence Rae1, major antidote YzI toxin. highly stable species containing open reading frames results from endoribonucleolytic cleavage upstream followed by arrest 5'-exoribonucleolytic processing ribosomes bound exceptionally strong Shine-Dalgarno sequence. Degradation this requires either within or direct attack structured 3'-end 3'-exoribonucleases. Neither pathway common for B.

Language: Английский

Citations

0
Formation of a stable RNase Y-RicT (YaaT) complex requires RicA (YmcA) and RicF (YlbF) DOI Creative Commons

Eugenie Dubnau,

Micaela DeSantis,

David Dubnau

et al.

mBio, Journal Year: 2023, Volume and Issue: unknown

Published: Aug. 9, 2023

ABSTRACT In Bacillus subtilis , the RicT (YaaT), RicA (YmcA), and RicF (YlbF) proteins, which form a stable ternary complex, are needed together with RNase Y (Rny) to cleave thereby stabilize several key transcripts encoding enzymes of intermediary metabolism. We show here that RicT, but not or RicF, forms complex Rny this association requires presence RicF. propose is handed off from Rny. further two iron-sulfur clusters carried by Ric required for formation RicT-Rny complex. demonstrate proteins degradosome-like network B. also interact Rny, dispensable processing gapA operon. Thus, participates in distinct RNA-related processes, determined its binding partners, likely functional entity mRNA maturation. IMPORTANCE The action nucleases on RNA universal essential all life includes steps lead mature certain transcripts. subtilis, it has been shown energy-producing glycolysis, nitrogen assimilation, oxidative phosphorylation, them crucial processes metabolism, cleaved at specific locations, resulting stabilization. these cleavages [Rny (RNase Y), (YlbF), (YaaT)] broadly conserved among firmicutes, including important pathogens, hinting regulatory mechanisms they control may be conserved. Several aspects events have explored: phenotypes associated absence described, impact absences transcriptome documented, there significant exploration biochemistry structural biology proteins. present study advances our understanding shows probably carries out

Language: Английский

Citations

6
Membrane Localization of RNase Y Is Important for Global Gene Expression in Bacillus subtilis DOI Open Access

Soumaya Laalami,

Marina Cavaiuolo, Jacques Oberto

et al.

Published: July 9, 2024

Abstract: RNase Y is an endoribonuclease that governs global mRNA turnover/processing in Ba-cillus subtilis and likely many other bacteria. The enzyme anchored at the cell membrane, a pseudo-compartmentalization appears coherent with its task to initiate decay of mRNAs translated predominantly periphery. However, reason consequence for attachment membrane are largely unknown. We have studied strain expressing wild-type levels cytoplasmic form from chromosomal locus. This exhibits slow growth phenotype similar null mutant. Genome-wide data show significant effect on expression hundreds genes. Certain RNA substrates clearly require but others do not. found no correlation between stabilization cellular location or function encoded proteins. Y-complex, specificity factor, also recognize which able restore corresponding transcripts. propose required functional interaction coding non-coding RNAs, limiting cleavage certain potentially avoid unfavorable competition ribonucleases like J evolutionarily conserved speci-ficity.

Language: Английский

Citations

1
Membrane Localization of RNase Y Is Important for Global Gene Expression in Bacillus subtilis DOI Open Access

Soumaya Laalami,

Marina Cavaiuolo, Jacques Oberto

et al.

International Journal of Molecular Sciences, Journal Year: 2024, Volume and Issue: 25(15), P. 8537 - 8537

Published: Aug. 5, 2024

RNase Y is a key endoribonuclease that regulates global mRNA turnover and processing in

Language: Английский

Citations

1
Interplay of two small RNAs fine-tunes hierarchical flagellar gene expression in the foodborne pathogenCampylobacter jejuni DOI Open Access
Fabian König, Sarah L. Svensson, Cynthia M. Sharma

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2023, Volume and Issue: unknown

Published: April 22, 2023

Abstract Like for many enteric bacteria, flagella are a crucial virulence factor the foodborne pathogen Campylobacter jejuni , allowing bacteria to move through viscous mucus of human intestine. Assembly complex flagellar machinery and filament requires hierarchical regulation via transcriptional control each component. In C. class I genes transcribed from σ 70 -dependent promoters II/III with help alternative sigma factors RpoN (σ 54 ) FliA 28 ). contrast control, less is known about post-transcriptional biosynthesis cascades small regulatory RNAs (sRNAs). Here, we characterized two sRNAs opposing effects on cascade that fine-tune assembly thereby impact motility. We demonstrate highly conserved sRNA CJnc230 (FlmE, length m otility e nhancer), encoded downstream hook structural protein FlgE, dependent RNase III processes flgE mRNA, while Y PNPase mature its 3’ end. identify mRNAs encoding regulator flagella-flagella interactions anti-σ FlgM as direct targets repression. Overexpression de-represses activity upregulates genes, such major flagellin flaA culminating in longer increased contrast, overexpression FliA-dependent CJnc170 (FlmR, r epressor) reduces Overall, our study demonstrates sRNA-mediated fine-tunes balancing hierarchically expressed components.

Language: Английский

Citations

2
Critical factors for precise and efficient RNA cleavage by RNase Y inStaphylococcus aureus DOI Open Access
Alexandre Le Scornet, Ambre Jousselin,

Kamila Baumas

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2023, Volume and Issue: unknown

Published: Aug. 22, 2023

Abstract Cellular processes require precise and specific gene regulation, in which continuous mRNA degradation is a major element. The mechanisms should be able to degrade wide range of different RNA substrates with high efficiency, but at the same time limited, avoid killing cell by elimination all cellular RNA. RNase Y endoribonuclease found most Firmicutes, including Bacillus subtilis Staphylococcus aureus . However, molecular interactions that direct cleave correct molecules position remain unknown. In this work we have identified transcripts are homologs S. B. , targets both bacteria. Two such transcript pairs were used as models show functional overlap between Y, highlighted importance nucleotide sequence molecule itself targeting process. Cleavage efficiency driven primary immediately downstream cleavage site base-pairing secondary structure few nucleotides downstream. positioning roughly localised fine-tuned upstream cleavage. elements sufficient for Y-dependent cleavage, since from one model convert an exogenous non-target into target Y. Author summary order correctly regulate level RNAs, bacteria their continuously synthesised degraded. even related bacterial species can sets ribonucleases, each own criteria. Here explore important being targeted endoribonuclese two bacteria, We specifically examine dependent identify short single-stranded regions modified change up 20-fold. furthermore discover required modulated moving structure.

Language: Английский

Citations

0