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Transcriptome architecture and regulation at environmental transitions in flavobacteria: the case of an important fish pathogen.
Guérin, Cyprien; Lee, Bo-Hyung; Fradet, Benjamin; van Dijk, Erwin; Mirauta, Bogdan; Thermes, Claude; Bernardet, Jean-François; Repoila, Francis; Duchaud, Eric; Nicolas, Pierre; Rochat, Tatiana.
Afiliação
  • Guérin C; Université Paris-Saclay, INRAE, MaIAGE, 78350, Jouy-en-Josas, France.
  • Lee BH; Université Paris-Saclay, INRAE, UVSQ, VIM, 78350, Jouy-en-Josas, France.
  • Fradet B; Université Paris-Saclay, INRAE, UVSQ, VIM, 78350, Jouy-en-Josas, France.
  • van Dijk E; Université Paris-Saclay, CEA, CNRS, Institute for Integrative Biology of the Cell (I2BC), 91198, Gif-sur-Yvette, France.
  • Mirauta B; Sorbonne Université, CNRS, IBPS, Laboratoire de Biologie Computationnelle et Quantitative (LCQB), 75005, Paris, France.
  • Thermes C; Université Paris-Saclay, CEA, CNRS, Institute for Integrative Biology of the Cell (I2BC), 91198, Gif-sur-Yvette, France.
  • Bernardet JF; Université Paris-Saclay, INRAE, UVSQ, VIM, 78350, Jouy-en-Josas, France.
  • Repoila F; Université Paris-Saclay, INRAE, AgroParisTech, Micalis Institute, 78350, Jouy-en-Josas, France.
  • Duchaud E; Université Paris-Saclay, INRAE, UVSQ, VIM, 78350, Jouy-en-Josas, France.
  • Nicolas P; Université Paris-Saclay, INRAE, MaIAGE, 78350, Jouy-en-Josas, France. pierre.nicolas@inrae.fr.
  • Rochat T; Université Paris-Saclay, INRAE, UVSQ, VIM, 78350, Jouy-en-Josas, France. tatiana.rochat@inrae.fr.
ISME Commun ; 1(1): 33, 2021 Jul 07.
Article em En | MEDLINE | ID: mdl-36739365
The family Flavobacteriaceae (phylum Bacteroidetes) is a major component of soil, marine and freshwater ecosystems. In this understudied family, Flavobacterium psychrophilum is a freshwater pathogen that infects salmonid fish worldwide, with critical environmental and economic impact. Here, we report an extensive transcriptome analysis that established the genome map of transcription start sites and transcribed regions, predicted alternative sigma factor regulons and regulatory RNAs, and documented gene expression profiles across 32 biological conditions mimicking the pathogen life cycle. The results link genes to environmental conditions and phenotypic traits and provide insights into gene regulation, highlighting similarities with better known bacteria and original characteristics linked to the phylogenetic position and the ecological niche of the bacterium. In particular, osmolarity appears as a signal for transition between free-living and within-host programs and expression patterns of secreted proteins shed light on probable virulence factors. Further investigations showed that a newly discovered sRNA widely conserved in the genus, Rfp18, is required for precise expression of proteases. By pointing proteins and regulatory elements probably involved in host-pathogen interactions, metabolic pathways, and molecular machineries, the results suggest many directions for future research; a website is made available to facilitate their use to fill knowledge gaps on flavobacteria.

Texto completo: 1 Base de dados: MEDLINE Tipo de estudo: Prognostic_studies Idioma: En Ano de publicação: 2021 Tipo de documento: Article

Texto completo: 1 Base de dados: MEDLINE Tipo de estudo: Prognostic_studies Idioma: En Ano de publicação: 2021 Tipo de documento: Article