Details

Autor(en) / Beteiligte

• Wurtzel, Omri
• Sesto, Nina
• Mellin, J R
• Karunker, Iris
• Edelheit, Sarit
• Bécavin, Christophe
• Archambaud, Cristel
• Cossart, Pascale
• Sorek, Rotem

Titel

Comparative transcriptomics of pathogenic and non‐pathogenic Listeria species

Ist Teil von

• Molecular systems biology, 2012, Vol.8 (1), p.583-n/a

Ort / Verlag

Chichester, UK: John Wiley & Sons, Ltd

Erscheinungsjahr

2012

Quelle

Access via Wiley Online Library

Beschreibungen/Notizen

• Listeria monocytogenes is a human, food‐borne pathogen. Genomic comparisons between L. monocytogenes and Listeria innocua, a closely related non‐pathogenic species, were pivotal in the identification of protein‐coding genes essential for virulence. However, no comprehensive comparison has focused on the non‐coding genome. We used strand‐specific cDNA sequencing to produce genome‐wide transcription start site maps for both organisms, and developed a publicly available integrative browser to visualize and analyze both transcriptomes in different growth conditions and genetic backgrounds. Our data revealed conservation across most transcripts, but significant divergence between the species in a subset of non‐coding RNAs. In L. monocytogenes, we identified 113 small RNAs (33 novel) and 70 antisense RNAs (53 novel), significantly increasing the repertoire of ncRNAs in this species. Remarkably, we identified a class of long antisense transcripts (lasRNAs) that overlap one gene while also serving as the 5′ UTR of the adjacent divergent gene. Experimental evidence suggests that lasRNAs transcription inhibits expression of one operon while activating the expression of another. Such a lasRNA/operon structure, that we named ‘excludon’, might represent a novel form of regulation in bacteria. Comparative RNA‐seq analysis of two related pathogenic and non‐pathogenic bacterial strains reveals a hidden layer of divergence in the non‐coding genome as well as conserved, widespread regulatory structures called ‘Excludons’, which mediate regulation through long non‐coding antisense RNAs. Synopsis Comparative RNA‐seq analysis of two related pathogenic and non‐pathogenic bacterial strains reveals a hidden layer of divergence in the non‐coding genome as well as conserved, widespread regulatory structures called ‘Excludons’, which mediate regulation through long non‐coding antisense RNAs. Comparative transcriptome sequencing of two closely related bacterial strains reveals a hidden layer of divergence in the non‐coding genome. Pathogen‐specific non‐coding RNAs, which might contribute to virulence, are revealed. The Listeria genome contains a class of unusually long antisense RNAs (lasRNAs) which spans divergent genes and repress expression of the genes located opposite to them while activating the other. The genetic organization of these lasRNAs and operon was named an excludon. The exhaustive transcriptome information from this publication is provided as an open resource with a web‐accessible transcriptome browser.