Deep sequencing defines the transcriptional map ofL. pneumophilaand identifies growth phase-dependent regulated ncRNAs implicated in virulence
| Autor: | Odile Sismeiro, Carmen Buchrieser, Delphine Dervins-Ravault, Tobias Sahr, Christophe Rusniok, Jean-Yves Coppée |
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| Přispěvatelé: | Biologie des Bactéries intracellulaires - Biology of Intracellular Bacteria, Institut Pasteur [Paris] (IP)-Centre National de la Recherche Scientifique (CNRS), Transcriptome et Epigénome (PF2), Institut Pasteur [Paris] (IP), This work was supported by the Institut Pasteur, the Centre National de la Recherche Scientifique (CNRS), the French Region lle-de-France (DIM MALinf) and the Institut Carnot-Pasteur MI., Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS), Institut Pasteur [Paris] |
| Rok vydání: | 2012 |
| Předmět: |
Small RNA
MESH: RNA Bacterial/genetics MESH: Legionella pneumophila/pathogenicity Operon MESH: RNA Small Untranslated/metabolism MESH: Base Sequence Legionella pneumophila Genome MESH: Sequence Analysis RNA Promoter Regions Genetic MESH: High-Throughput Nucleotide Sequencing Genetics Acanthamoeba castellanii 0303 health sciences biology Chromosome Mapping High-Throughput Nucleotide Sequencing MESH: Legionella pneumophila/growth & development RNA Bacterial MESH: Nucleic Acid Conformation MESH: 5' Untranslated Regions MESH: Transcription Initiation Site Transcription Initiation Site MESH: Gene Expression Regulation Bacterial MESH: Operon Molecular Sequence Data Virulence MESH: Molecular Sequence Annotation [SDV.BC]Life Sciences [q-bio]/Cellular Biology MESH: Bacterial Proteins/genetics MESH: Legionella pneumophila/genetics Deep sequencing deep sequencing 03 medical and health sciences Bacterial Proteins Consensus Sequence MESH: Promoter Regions Genetic MESH: Consensus Sequence MESH: Virulence/genetics Molecular Biology Gene small non-coding RNA 030304 developmental biology MESH: Molecular Sequence Data Base Sequence Sequence Analysis RNA 030306 microbiology MESH: Transcriptome Molecular Sequence Annotation Promoter Gene Expression Regulation Bacterial Cell Biology bacterial infections and mycoses biology.organism_classification respiratory tract diseases virulence transcriptional start site mapping MESH: RNA Small Untranslated/genetics MESH: Acanthamoeba castellanii/microbiology MESH: RNA Bacterial/metabolism Nucleic Acid Conformation RNA Small Untranslated 5' Untranslated Regions Transcriptome MESH: Chromosome Mapping |
| Zdroj: | RNA Biology RNA Biology, 2012, 9 (4), pp.503-519. ⟨10.4161/rna.20270⟩ RNA Biology, Taylor & Francis, 2012, 9 (4), pp.503-519. ⟨10.4161/rna.20270⟩ |
| ISSN: | 1555-8584 1547-6286 |
| DOI: | 10.4161/rna.20270 |
| Popis: | International audience; The bacterium Legionella pneumophila is found ubiquitously in aquatic environments and can cause a severe pneumonia in humans called Legionnaires' disease. How this bacterium switches from intracellular to extracellular life and adapts to different hosts and environmental conditions is only partly understood. Here we used RNA deep sequencing from exponentially (replicative) and post exponentially (virulent) grown L. pneumophila to analyze the transcriptional landscape of its entire genome. We established the complete operon map and defined 2561 primary transcriptional start sites (TSS). Interestingly, 187 of the 1805 TSS of protein-coding genes contained tandem promoters of which 93 show alternative usage dependent on the growth phase. Similarly, over 60% of 713 here identified ncRNAs are phase dependently regulated. Analysis of their conservation among the seven L. pneumophila genomes sequenced revealed many strain specific differences suggesting that L. pneumophila contains a highly dynamic pool of ncRNAs. Analysis of six ncRNAs exhibiting the same expression pattern as virulence genes showed that two, Lppnc0584 and Lppnc0405 are indeed involved in intracellular growth of L. pneumophila in A. castellanii. Furthermore, L. pneumophila encodes a small RNA named RsmX that functions together with RsmY and RsmZ in the LetA-CsrA regulatory pathway, crucial for the switch to the virulent phenotype. Together our data provide new insight into the transcriptional organization of the L. pneumophila genome, identified many new ncRNAs and will provide a framework for the understanding of virulence and adaptation properties of L. pneumophila. |
| Databáze: | OpenAIRE |
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