CsrA selectively modulates sRNA-mRNA regulator outcomes
Post-transcriptional regulation, by small RNAs (sRNAs) as well as the global Carbon Storage Regulator A (CsrA) protein, play critical roles in bacterial metabolic control and stress responses. The CsrA protein affects selective sRNA-mRNA networks, in addition to regulating transcription factors and...
| Main Authors: | , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Frontiers Media S.A.
2023-11-01
|
| Series: | Frontiers in Molecular Biosciences |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/articles/10.3389/fmolb.2023.1249528/full |
| _version_ | 1797403397168562176 |
|---|---|
| author | Alejandra Matsuri Rojano-Nisimura Trevor R. Simmons Abigail N. Leistra Mia K. Mihailovic Ryan Buchser Alyssa M. Ekdahl Isabella Joseph Nicholas C. Curtis Lydia M. Contreras Lydia M. Contreras |
| author_facet | Alejandra Matsuri Rojano-Nisimura Trevor R. Simmons Abigail N. Leistra Mia K. Mihailovic Ryan Buchser Alyssa M. Ekdahl Isabella Joseph Nicholas C. Curtis Lydia M. Contreras Lydia M. Contreras |
| author_sort | Alejandra Matsuri Rojano-Nisimura |
| collection | DOAJ |
| description | Post-transcriptional regulation, by small RNAs (sRNAs) as well as the global Carbon Storage Regulator A (CsrA) protein, play critical roles in bacterial metabolic control and stress responses. The CsrA protein affects selective sRNA-mRNA networks, in addition to regulating transcription factors and sigma factors, providing additional avenues of cross talk between other stress-response regulators. Here, we expand the known set of sRNA-CsrA interactions and study their regulatory effects. In vitro binding assays confirm novel CsrA interactions with ten sRNAs, many of which are previously recognized as key regulatory nodes. Of those 10 sRNA, we identify that McaS, FnrS, SgrS, MicL, and Spot42 interact directly with CsrA in vivo. We find that the presence of CsrA impacts the downstream regulation of mRNA targets of the respective sRNA. In vivo evidence supports enhanced CsrA McaS-csgD mRNA repression and showcases CsrA-dependent repression of the fucP mRNA via the Spot42 sRNA. We additionally identify SgrS and FnrS as potential new sRNA sponges of CsrA. Overall, our results further support the expanding impact of the Csr system on cellular physiology via CsrA impact on the regulatory roles of these sRNAs. |
| first_indexed | 2024-03-09T02:38:56Z |
| format | Article |
| id | doaj.art-f4a81de5c79e4ef7ba13bd3d7ef2b000 |
| institution | Directory Open Access Journal |
| issn | 2296-889X |
| language | English |
| last_indexed | 2024-03-09T02:38:56Z |
| publishDate | 2023-11-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Molecular Biosciences |
| spelling | doaj.art-f4a81de5c79e4ef7ba13bd3d7ef2b0002023-12-06T07:52:56ZengFrontiers Media S.A.Frontiers in Molecular Biosciences2296-889X2023-11-011010.3389/fmolb.2023.12495281249528CsrA selectively modulates sRNA-mRNA regulator outcomesAlejandra Matsuri Rojano-Nisimura0Trevor R. Simmons1Abigail N. Leistra2Mia K. Mihailovic3Ryan Buchser4Alyssa M. Ekdahl5Isabella Joseph6Nicholas C. Curtis7Lydia M. Contreras8Lydia M. Contreras9Biochemistry Graduate Program, University of Texas at Austin, Austin, TX, United StatesMcKetta Department of Chemical Engineering, University of Texas at Austin, Austin, TX, United StatesMcKetta Department of Chemical Engineering, University of Texas at Austin, Austin, TX, United StatesMcKetta Department of Chemical Engineering, University of Texas at Austin, Austin, TX, United StatesMcKetta Department of Chemical Engineering, University of Texas at Austin, Austin, TX, United StatesMcKetta Department of Chemical Engineering, University of Texas at Austin, Austin, TX, United StatesMcKetta Department of Chemical Engineering, University of Texas at Austin, Austin, TX, United StatesMcKetta Department of Chemical Engineering, University of Texas at Austin, Austin, TX, United StatesBiochemistry Graduate Program, University of Texas at Austin, Austin, TX, United StatesMcKetta Department of Chemical Engineering, University of Texas at Austin, Austin, TX, United StatesPost-transcriptional regulation, by small RNAs (sRNAs) as well as the global Carbon Storage Regulator A (CsrA) protein, play critical roles in bacterial metabolic control and stress responses. The CsrA protein affects selective sRNA-mRNA networks, in addition to regulating transcription factors and sigma factors, providing additional avenues of cross talk between other stress-response regulators. Here, we expand the known set of sRNA-CsrA interactions and study their regulatory effects. In vitro binding assays confirm novel CsrA interactions with ten sRNAs, many of which are previously recognized as key regulatory nodes. Of those 10 sRNA, we identify that McaS, FnrS, SgrS, MicL, and Spot42 interact directly with CsrA in vivo. We find that the presence of CsrA impacts the downstream regulation of mRNA targets of the respective sRNA. In vivo evidence supports enhanced CsrA McaS-csgD mRNA repression and showcases CsrA-dependent repression of the fucP mRNA via the Spot42 sRNA. We additionally identify SgrS and FnrS as potential new sRNA sponges of CsrA. Overall, our results further support the expanding impact of the Csr system on cellular physiology via CsrA impact on the regulatory roles of these sRNAs.https://www.frontiersin.org/articles/10.3389/fmolb.2023.1249528/fullCsrA/RsmAsRNA (small RNA)sRNA regulatory networkPosttranscriptional regulationRNA-protein interactions |
| spellingShingle | Alejandra Matsuri Rojano-Nisimura Trevor R. Simmons Abigail N. Leistra Mia K. Mihailovic Ryan Buchser Alyssa M. Ekdahl Isabella Joseph Nicholas C. Curtis Lydia M. Contreras Lydia M. Contreras CsrA selectively modulates sRNA-mRNA regulator outcomes Frontiers in Molecular Biosciences CsrA/RsmA sRNA (small RNA) sRNA regulatory network Posttranscriptional regulation RNA-protein interactions |
| title | CsrA selectively modulates sRNA-mRNA regulator outcomes |
| title_full | CsrA selectively modulates sRNA-mRNA regulator outcomes |
| title_fullStr | CsrA selectively modulates sRNA-mRNA regulator outcomes |
| title_full_unstemmed | CsrA selectively modulates sRNA-mRNA regulator outcomes |
| title_short | CsrA selectively modulates sRNA-mRNA regulator outcomes |
| title_sort | csra selectively modulates srna mrna regulator outcomes |
| topic | CsrA/RsmA sRNA (small RNA) sRNA regulatory network Posttranscriptional regulation RNA-protein interactions |
| url | https://www.frontiersin.org/articles/10.3389/fmolb.2023.1249528/full |
| work_keys_str_mv | AT alejandramatsurirojanonisimura csraselectivelymodulatessrnamrnaregulatoroutcomes AT trevorrsimmons csraselectivelymodulatessrnamrnaregulatoroutcomes AT abigailnleistra csraselectivelymodulatessrnamrnaregulatoroutcomes AT miakmihailovic csraselectivelymodulatessrnamrnaregulatoroutcomes AT ryanbuchser csraselectivelymodulatessrnamrnaregulatoroutcomes AT alyssamekdahl csraselectivelymodulatessrnamrnaregulatoroutcomes AT isabellajoseph csraselectivelymodulatessrnamrnaregulatoroutcomes AT nicholasccurtis csraselectivelymodulatessrnamrnaregulatoroutcomes AT lydiamcontreras csraselectivelymodulatessrnamrnaregulatoroutcomes AT lydiamcontreras csraselectivelymodulatessrnamrnaregulatoroutcomes |