title: New RNA-seq approaches for the study of bacterial pathogens.
abstract: Understanding how bacteria cause disease requires knowledge of which genes are expressed and how they are regulated during infection. While RNA-seq is now a routine method for gene expression analysis in bacterial pathogens, the past years have also witnessed a surge of novel RNA-seq based approaches going beyond standard mRNA profiling. These include variations of the technique to capture post-transcriptional networks controlled by small RNAs and to discover associated RNA-binding proteins in the pathogen itself. Dual RNA-seq analyzing pathogen and host simultaneously has revealed roles of noncoding RNAs during infection and enabled the correlation of bacterial gene activity with specific host responses. Single-cell RNA-seq studies have addressed how heterogeneity among individual host cells may determine infection outcomes.
authors.affiliation: RNA Biology Group, Institute for Molecular Infection Biology, University of Würzburg, Josef-Schneider-Straße 2, D-97080 Würzburg, Germany.
authors.forename: Antoine-Emmanuel
authors.initials: AE
authors.lastname: Saliba
authors.affiliation: RNA Biology Group, Institute for Molecular Infection Biology, University of Würzburg, Josef-Schneider-Straße 2, D-97080 Würzburg, Germany.
authors.forename: Sara
authors.initials: S
authors.lastname: C Santos
authors.affiliation: RNA Biology Group, Institute for Molecular Infection Biology, University of Würzburg, Josef-Schneider-Straße 2, D-97080 Würzburg, Germany; Helmholtz Institute for RNA-based Infection Research, D-97080 Würzburg, Germany. Electronic address: joerg.vogel@uni-wuerzburg.de.
authors.forename: Jörg
authors.initials: J
authors.lastname: Vogel
mesh_terms: D000818:Animals; D001419:Bacteria / Q000235:genetics* / Q000472:pathogenicity*; D057508:Burkholderia cenocepacia / Q000235:genetics / Q000472:pathogenicity; D020869:Gene Expression Profiling; D054884:Host-Pathogen Interactions / Q000235:genetics*; D006801:Humans; D051379:Mice; D012333:RNA, Messenger / Q000235:genetics; D022661:RNA, Untranslated; D016601:RNA-Binding Proteins / Q000235:genetics; D019779:Salmonella enterica / Q000235:genetics / Q000472:pathogenicity; D017423:Sequence Analysis, RNA / Q000145:classification / Q000379:methods*; D059010:Single-Cell Analysis; D059467:Transcriptome
chemical_list: D012333:RNA, Messenger; D022661:RNA, Untranslated; D016601:RNA-Binding Proteins