Expression profiling reveals Spot 42 small RNA as a key regulator in the central metabolism of Aliivibrio salmonicida
Abstract Background Spot 42 was discovered in Escherichia coli nearly 40 years ago as an abundant, small and unstable RNA. Its biological role has remained obscure until recently, and is today implicated in having broader roles in the central and secondary metabolism. Spot 42 is encoded by the spf g...
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ftdoajarticles:oai:doaj.org/article:b5cfed071aea44eaa3e65aeca3d61ac2 2023-05-15T15:32:40+02:00 Expression profiling reveals Spot 42 small RNA as a key regulator in the central metabolism of Aliivibrio salmonicida Hansen Geir Å Ahmad Rafi Hjerde Erik Fenton Christopher G Willassen Nils-Peder Haugen Peik 2012-01-01T00:00:00Z https://doi.org/10.1186/1471-2164-13-37 https://doaj.org/article/b5cfed071aea44eaa3e65aeca3d61ac2 EN eng BMC http://www.biomedcentral.com/1471-2164/13/37 https://doaj.org/toc/1471-2164 doi:10.1186/1471-2164-13-37 1471-2164 https://doaj.org/article/b5cfed071aea44eaa3e65aeca3d61ac2 BMC Genomics, Vol 13, Iss 1, p 37 (2012) Biotechnology TP248.13-248.65 Genetics QH426-470 article 2012 ftdoajarticles https://doi.org/10.1186/1471-2164-13-37 2022-12-31T02:10:30Z Abstract Background Spot 42 was discovered in Escherichia coli nearly 40 years ago as an abundant, small and unstable RNA. Its biological role has remained obscure until recently, and is today implicated in having broader roles in the central and secondary metabolism. Spot 42 is encoded by the spf gene. The gene is ubiquitous in the Vibrionaceae family of gamma-proteobacteria. One member of this family, Aliivibrio salmonicida , causes cold-water vibriosis in farmed Atlantic salmon. Its genome encodes Spot 42 with 84% identity to E. coli Spot 42. Results We generated a A. salmonicida spf deletion mutant. We then used microarray and Northern blot analyses to monitor global effects on the transcriptome in order to provide insights into the biological roles of Spot 42 in this bacterium. In the presence of glucose, we found a surprisingly large number of ≥ 2X differentially expressed genes, and several major cellular processes were affected. A gene encoding a pirin-like protein showed an on/off expression pattern in the presence/absence of Spot 42, which suggests that Spot 42 plays a key regulatory role in the central metabolism by regulating the switch between fermentation and respiration. Interestingly, we discovered an sRNA named VSsrna24, which is encoded immediately downstream of spf . This new sRNA has an expression pattern opposite to that of Spot 42, and its expression is repressed by glucose. Conclusions We hypothesize that Spot 42 plays a key role in the central metabolism, in part by regulating the pyruvat dehydrogenase enzyme complex via pirin. Article in Journal/Newspaper Atlantic salmon Directory of Open Access Journals: DOAJ Articles BMC Genomics 13 1 37 |
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Directory of Open Access Journals: DOAJ Articles |
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English |
topic |
Biotechnology TP248.13-248.65 Genetics QH426-470 |
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Biotechnology TP248.13-248.65 Genetics QH426-470 Hansen Geir Å Ahmad Rafi Hjerde Erik Fenton Christopher G Willassen Nils-Peder Haugen Peik Expression profiling reveals Spot 42 small RNA as a key regulator in the central metabolism of Aliivibrio salmonicida |
topic_facet |
Biotechnology TP248.13-248.65 Genetics QH426-470 |
description |
Abstract Background Spot 42 was discovered in Escherichia coli nearly 40 years ago as an abundant, small and unstable RNA. Its biological role has remained obscure until recently, and is today implicated in having broader roles in the central and secondary metabolism. Spot 42 is encoded by the spf gene. The gene is ubiquitous in the Vibrionaceae family of gamma-proteobacteria. One member of this family, Aliivibrio salmonicida , causes cold-water vibriosis in farmed Atlantic salmon. Its genome encodes Spot 42 with 84% identity to E. coli Spot 42. Results We generated a A. salmonicida spf deletion mutant. We then used microarray and Northern blot analyses to monitor global effects on the transcriptome in order to provide insights into the biological roles of Spot 42 in this bacterium. In the presence of glucose, we found a surprisingly large number of ≥ 2X differentially expressed genes, and several major cellular processes were affected. A gene encoding a pirin-like protein showed an on/off expression pattern in the presence/absence of Spot 42, which suggests that Spot 42 plays a key regulatory role in the central metabolism by regulating the switch between fermentation and respiration. Interestingly, we discovered an sRNA named VSsrna24, which is encoded immediately downstream of spf . This new sRNA has an expression pattern opposite to that of Spot 42, and its expression is repressed by glucose. Conclusions We hypothesize that Spot 42 plays a key role in the central metabolism, in part by regulating the pyruvat dehydrogenase enzyme complex via pirin. |
format |
Article in Journal/Newspaper |
author |
Hansen Geir Å Ahmad Rafi Hjerde Erik Fenton Christopher G Willassen Nils-Peder Haugen Peik |
author_facet |
Hansen Geir Å Ahmad Rafi Hjerde Erik Fenton Christopher G Willassen Nils-Peder Haugen Peik |
author_sort |
Hansen Geir Å |
title |
Expression profiling reveals Spot 42 small RNA as a key regulator in the central metabolism of Aliivibrio salmonicida |
title_short |
Expression profiling reveals Spot 42 small RNA as a key regulator in the central metabolism of Aliivibrio salmonicida |
title_full |
Expression profiling reveals Spot 42 small RNA as a key regulator in the central metabolism of Aliivibrio salmonicida |
title_fullStr |
Expression profiling reveals Spot 42 small RNA as a key regulator in the central metabolism of Aliivibrio salmonicida |
title_full_unstemmed |
Expression profiling reveals Spot 42 small RNA as a key regulator in the central metabolism of Aliivibrio salmonicida |
title_sort |
expression profiling reveals spot 42 small rna as a key regulator in the central metabolism of aliivibrio salmonicida |
publisher |
BMC |
publishDate |
2012 |
url |
https://doi.org/10.1186/1471-2164-13-37 https://doaj.org/article/b5cfed071aea44eaa3e65aeca3d61ac2 |
genre |
Atlantic salmon |
genre_facet |
Atlantic salmon |
op_source |
BMC Genomics, Vol 13, Iss 1, p 37 (2012) |
op_relation |
http://www.biomedcentral.com/1471-2164/13/37 https://doaj.org/toc/1471-2164 doi:10.1186/1471-2164-13-37 1471-2164 https://doaj.org/article/b5cfed071aea44eaa3e65aeca3d61ac2 |
op_doi |
https://doi.org/10.1186/1471-2164-13-37 |
container_title |
BMC Genomics |
container_volume |
13 |
container_issue |
1 |
container_start_page |
37 |
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1766363166570184704 |