title: Transcriptomic profiling of the oyster pathogen Vibrio splendidus opens a window on the evolutionary dynamics of the small RNA repertoire in the Vibrio genus.
abstract: Work in recent years has led to the recognition of the importance of small regulatory RNAs (sRNAs) in bacterial regulation networks. New high-throughput sequencing technologies are paving the way to the exploration of an expanding sRNA world in nonmodel bacteria. In the Vibrio genus, compared to the enterobacteriaceae, still a limited number of sRNAs have been characterized, mostly in Vibrio cholerae, where they have been shown to be important for virulence, as well as in Vibrio harveyi. In addition, genome-wide approaches in V. cholerae have led to the discovery of hundreds of potential new sRNAs. Vibrio splendidus is an oyster pathogen that has been recently associated with massive mortality episodes in the French oyster growing industry. Here, we report the first RNA-seq study in a Vibrio outside of the V. cholerae species. We have uncovered hundreds of candidate regulatory RNAs, be it cis-regulatory elements, antisense RNAs, and trans-encoded sRNAs. Conservation studies showed the majority of them to be specific to V. splendidus. However, several novel sRNAs, previously unidentified, are also present in V. cholerae. Finally, we identified 28 trans sRNAs that are conserved in all the Vibrio genus species for which a complete genome sequence is available, possibly forming a Vibrio "sRNA core."
authors.affiliation: Institut de Génétique et Microbiologie, CNRS/UMR 8621, IFR115, Université Paris-Sud, Bâtiment 400, 91405 Orsay Cedex, France.
authors.forename: Claire
authors.initials: C
authors.lastname: Toffano-Nioche
authors.forename: An N
authors.initials: AN
authors.lastname: Nguyen
authors.forename: Claire
authors.initials: C
authors.lastname: Kuchly
authors.forename: Alban
authors.initials: A
authors.lastname: Ott
authors.forename: Daniel
authors.initials: D
authors.lastname: Gautheret
authors.forename: Philippe
authors.initials: P
authors.lastname: Bouloc
authors.forename: Annick
authors.initials: A
authors.lastname: Jacq
mesh_terms: D020121:5' Untranslated Regions; D000595:Amino Acid Sequence; D000818:Animals; D001426:Bacterial Proteins / Q000235:genetics; D002876:Chromosomes, Bacterial / Q000235:genetics / Q000378:metabolism; D019143:Evolution, Molecular; D020563:Gammaproteobacteria / Q000235:genetics; D020869:Gene Expression Profiling; D008969:Molecular Sequence Data; D010125:Ostreidae / Q000382:microbiology*; D010802:Phylogeny; D012329:RNA, Bacterial / Q000235:genetics* / Q000378:metabolism; D034741:RNA, Small Interfering / Q000235:genetics / Q000378:metabolism; D012342:RNA, Small Nuclear / Q000235:genetics / Q000378:metabolism; D013045:Species Specificity; D014733:Vibrio / Q000145:classification / Q000235:genetics* / Q000378:metabolism / Q000472:pathogenicity*
chemical_list: D020121:5' Untranslated Regions; D001426:Bacterial Proteins; D012329:RNA, Bacterial; D034741:RNA, Small Interfering; D012342:RNA, Small Nuclear