OmrA-B RNA: Difference between revisions
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The '''OmrA-B RNA''' gene family (also known as '''SraE RNA''', '''RygA''' and '''RygB''' and '''OmrA''' and '''OmrB''') is a pair of [[homology (biology)|homologous]] [[OmpR]]-regulated small [[non-coding RNA]] that was discovered in ''E. coli'' during two large scale screens.<ref>{{cite journal | last = Argaman | first = L | coauthors = Hershberg R, Vogel J, Bejerano G, Wagner EG, Margalit H, Altuvia S | year = 2001 | title = Novel small RNA-encoding genes in the intergenic regions of Escherichia coli | journal = Curr Biol | volume = 11 | pages = 941–950 | pmid = 11448770 | doi = 10.1016/S0960-9822(01)00270-6 | issue = 12}}</ref><ref>{{cite journal | last = Wassarman | first = KM | coauthors = Repoila F, Rosenow C, Storz G, Gottesman S | year = 2001 | title = Identification of novel small RNAs using comparative genomics and microarrays | journal = Genes Dev | volume = 15 | pages = 1637–1651 | pmid = 11445539 | doi = 10.1101/gad.901001 | issue = 13 | pmc = 312727}}</ref> OmrA-B is highly abundant in stationary phase, but low levels could be detected in exponentially growing cells as well. RygB is adjacent to RygA a closely related RNA. These RNAs bind to the [[Hfq protein]] and regulate [[gene expression]] by antisense binding. |
The '''OmrA-B RNA''' gene family (also known as '''SraE RNA''', '''RygA''' and '''RygB''' and '''OmrA''' and '''OmrB''') is a pair of [[homology (biology)|homologous]] [[OmpR]]-regulated small [[non-coding RNA]] that was discovered in ''E. coli'' during two large scale screens.<ref>{{cite journal | last = Argaman | first = L | coauthors = Hershberg R, Vogel J, Bejerano G, Wagner EG, Margalit H, Altuvia S | year = 2001 | title = Novel small RNA-encoding genes in the intergenic regions of Escherichia coli | journal = Curr Biol | volume = 11 | pages = 941–950 | pmid = 11448770 | doi = 10.1016/S0960-9822(01)00270-6 | issue = 12}}</ref><ref>{{cite journal | last = Wassarman | first = KM | coauthors = Repoila F, Rosenow C, Storz G, Gottesman S | year = 2001 | title = Identification of novel small RNAs using comparative genomics and microarrays | journal = Genes Dev | volume = 15 | pages = 1637–1651 | pmid = 11445539 | doi = 10.1101/gad.901001 | issue = 13 | pmc = 312727}}</ref> OmrA-B is highly abundant in stationary phase, but low levels could be detected in exponentially growing cells as well. RygB is adjacent to RygA a closely related RNA. These RNAs bind to the [[Hfq protein]] and regulate [[gene expression]] by antisense binding. |
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They negatively regulate the expression of several genes encoding [[Bacterial outer membrane|outer membrane]] proteins, including [[cirA]], [[CsgD]], [[fecA]], [[fepA]] and [[ompT]] by binding in the vicinity of the [[Shine-Dalgarno sequence]], suggesting the control of these targets is dependent on [[Hfq protein]] and [[RNase E]]. Taken together, these data suggest that OmrA-B participates in the regulation of outer membrane composition, responding to environmental conditions.<ref name="pmid16359331">{{cite journal |doi=10.1111/j.1365-2958.2005.04929.x |author=Guillier M, Gottesman S |title=Remodelling of the Escherichia coli outer membrane by two small regulatory RNAs. |journal=Mol Microbiol |volume=59 |issue=1 |pages=231–47 |year=2006 |pmid=16359331}}</ref><ref name="pmid18953042">{{cite journal |author=Guillier M, Gottesman S |title=The 5' end of two redundant sRNAs is involved in the regulation of multiple targets, including their own regulator. |journal=Nucleic Acids Res |volume=36 |issue=21 |pages=6781–94 |year=2008 |pmid=18953042 |doi=10.1093/nar/gkn742 |pmc=2588501}}</ref><ref name="pmid20407422">{{cite journal |author=Holmqvist E, Reimegård J, Sterk M, Grantcharova N, Römling U, Wagner EG |title=Two antisense RNAs target the transcriptional regulator CsgD to inhibit curli synthesis. |journal=EMBO J |volume=29 |issue=11 |pages=1840–50 |year=2010 |pmid=20407422}}</ref> |
They negatively regulate the expression of several genes encoding [[Bacterial outer membrane|outer membrane]] proteins, including [[cirA]], [[CsgD]], [[fecA]], [[fepA]] and [[ompT]] by binding in the vicinity of the [[Shine-Dalgarno sequence]], suggesting the control of these targets is dependent on [[Hfq protein]] and [[RNase E]]. Taken together, these data suggest that OmrA-B participates in the regulation of outer membrane composition, responding to environmental conditions.<ref name="pmid16359331">{{cite journal |doi=10.1111/j.1365-2958.2005.04929.x |author=Guillier M, Gottesman S |title=Remodelling of the Escherichia coli outer membrane by two small regulatory RNAs. |journal=Mol Microbiol |volume=59 |issue=1 |pages=231–47 |year=2006 |pmid=16359331}}</ref><ref name="pmid18953042">{{cite journal |author=Guillier M, Gottesman S |title=The 5' end of two redundant sRNAs is involved in the regulation of multiple targets, including their own regulator. |journal=Nucleic Acids Res |volume=36 |issue=21 |pages=6781–94 |year=2008 |pmid=18953042 |doi=10.1093/nar/gkn742 |pmc=2588501}}</ref><ref name="pmid20407422">{{cite journal |author=Holmqvist E, Reimegård J, Sterk M, Grantcharova N, Römling U, Wagner EG |title=Two antisense RNAs target the transcriptional regulator CsgD to inhibit curli synthesis. |journal=EMBO J |volume=29 |issue=11 |pages=1840–50 |year=2010 |pmid=20407422 |doi=10.1038/emboj.2010.73 |pmc=2885931}}</ref> |
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==References== |
==References== |
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Revision as of 21:17, 1 November 2013
| OmrA-B RNA | |
|---|---|
 A representation of the bacterial OmrA-B secondary structure including a colour scheme that indicates the degree of sequence conservation. | |
| Identifiers | |
| Symbol | OmrA-B |
| Alt. Symbols | OmrA, OmrB, SraE, RygA, RygB |
| Rfam | RF00079 |
| Other data | |
| RNA type | Gene |
| Domain(s) | Bacteria; Enterobacteriaceae |
| PDB structures | PDBe |
The OmrA-B RNA gene family (also known as SraE RNA, RygA and RygB and OmrA and OmrB) is a pair of homologous OmpR-regulated small non-coding RNA that was discovered in E. coli during two large scale screens.[1][2] OmrA-B is highly abundant in stationary phase, but low levels could be detected in exponentially growing cells as well. RygB is adjacent to RygA a closely related RNA. These RNAs bind to the Hfq protein and regulate gene expression by antisense binding. They negatively regulate the expression of several genes encoding outer membrane proteins, including cirA, CsgD, fecA, fepA and ompT by binding in the vicinity of the Shine-Dalgarno sequence, suggesting the control of these targets is dependent on Hfq protein and RNase E. Taken together, these data suggest that OmrA-B participates in the regulation of outer membrane composition, responding to environmental conditions.[3][4][5]
References
- ^ Argaman, L (2001). "Novel small RNA-encoding genes in the intergenic regions of Escherichia coli". Curr Biol. 11 (12): 941–950. doi:10.1016/S0960-9822(01)00270-6. PMID 11448770.
{{cite journal}}: Unknown parameter|coauthors=ignored (|author=suggested) (help) - ^ Wassarman, KM (2001). "Identification of novel small RNAs using comparative genomics and microarrays". Genes Dev. 15 (13): 1637–1651. doi:10.1101/gad.901001. PMC 312727. PMID 11445539.
{{cite journal}}: Unknown parameter|coauthors=ignored (|author=suggested) (help) - ^ Guillier M, Gottesman S (2006). "Remodelling of the Escherichia coli outer membrane by two small regulatory RNAs". Mol Microbiol. 59 (1): 231–47. doi:10.1111/j.1365-2958.2005.04929.x. PMID 16359331.
- ^ Guillier M, Gottesman S (2008). "The 5' end of two redundant sRNAs is involved in the regulation of multiple targets, including their own regulator". Nucleic Acids Res. 36 (21): 6781–94. doi:10.1093/nar/gkn742. PMC 2588501. PMID 18953042.
- ^ Holmqvist E, Reimegård J, Sterk M, Grantcharova N, Römling U, Wagner EG (2010). "Two antisense RNAs target the transcriptional regulator CsgD to inhibit curli synthesis". EMBO J. 29 (11): 1840–50. doi:10.1038/emboj.2010.73. PMC 2885931. PMID 20407422.
{{cite journal}}: CS1 maint: multiple names: authors list (link)