Sequencing illustrates the transcriptional response of Legionella pneumophila during infection and identifies seventy novel small non-coding RNAs.

Hdl Handle:
http://hdl.handle.net/10147/135956
Title:
Sequencing illustrates the transcriptional response of Legionella pneumophila during infection and identifies seventy novel small non-coding RNAs.
Authors:
Weissenmayer, Barbara A; Prendergast, James G D; Lohan, Amanda J; Loftus, Brendan J
Affiliation:
UCD Conway Institute for Biomolecular and Biomedical Research, Dublin, Ireland.
Citation:
Sequencing illustrates the transcriptional response of Legionella pneumophila during infection and identifies seventy novel small non-coding RNAs. 2011, 6 (3):e17570 PLoS ONE
Journal:
PloS one
Issue Date:
2011
URI:
http://hdl.handle.net/10147/135956
DOI:
10.1371/journal.pone.0017570
PubMed ID:
21408607
Additional Links:
http://www.ncbi.nlm.nih.gov/pubmed/21408607
Abstract:
Second generation sequencing has prompted a number of groups to re-interrogate the transcriptomes of several bacterial and archaeal species. One of the central findings has been the identification of complex networks of small non-coding RNAs that play central roles in transcriptional regulation in all growth conditions and for the pathogen's interaction with and survival within host cells. Legionella pneumophila is a gram-negative facultative intracellular human pathogen with a distinct biphasic lifestyle. One of its primary environmental hosts in the free-living amoeba Acanthamoeba castellanii and its infection by L. pneumophila mimics that seen in human macrophages. Here we present analysis of strand specific sequencing of the transcriptional response of L. pneumophila during exponential and post-exponential broth growth and during the replicative and transmissive phase of infection inside A. castellanii. We extend previous microarray based studies as well as uncovering evidence of a complex regulatory architecture underpinned by numerous non-coding RNAs. Over seventy new non-coding RNAs could be identified; many of them appear to be strain specific and in configurations not previously reported. We discover a family of non-coding RNAs preferentially expressed during infection conditions and identify a second copy of 6S RNA in L. pneumophila. We show that the newly discovered putative 6S RNA as well as a number of other non-coding RNAs show evidence for antisense transcription. The nature and extent of the non-coding RNAs and their expression patterns suggests that these may well play central roles in the regulation of Legionella spp. specific traits and offer clues as to how L. pneumophila adapts to its intracellular niche. The expression profiles outlined in the study have been deposited into Genbank's Gene Expression Omnibus (GEO) database under the series accession GSE27232.
Item Type:
Article
Language:
en
MeSH:
Acanthamoeba castellanii; Base Sequence; Conserved Sequence; Culture Media; Gene Expression Profiling; Gene Expression Regulation, Bacterial; Genes, Bacterial; Humans; Intracellular Space; Legionella pneumophila; Legionnaires' Disease; Molecular Sequence Data; Nucleic Acid Conformation; RNA, Antisense; RNA, Bacterial; RNA, Small Untranslated; Sequence Analysis, DNA; Species Specificity; Time Factors; Transcription, Genetic; Up-Regulation
ISSN:
1932-6203

Full metadata record

DC FieldValue Language
dc.contributor.authorWeissenmayer, Barbara Aen
dc.contributor.authorPrendergast, James G Den
dc.contributor.authorLohan, Amanda Jen
dc.contributor.authorLoftus, Brendan Jen
dc.date.accessioned2011-07-13T09:42:48Z-
dc.date.available2011-07-13T09:42:48Z-
dc.date.issued2011-
dc.identifier.citationSequencing illustrates the transcriptional response of Legionella pneumophila during infection and identifies seventy novel small non-coding RNAs. 2011, 6 (3):e17570 PLoS ONEen
dc.identifier.issn1932-6203-
dc.identifier.pmid21408607-
dc.identifier.doi10.1371/journal.pone.0017570-
dc.identifier.urihttp://hdl.handle.net/10147/135956-
dc.description.abstractSecond generation sequencing has prompted a number of groups to re-interrogate the transcriptomes of several bacterial and archaeal species. One of the central findings has been the identification of complex networks of small non-coding RNAs that play central roles in transcriptional regulation in all growth conditions and for the pathogen's interaction with and survival within host cells. Legionella pneumophila is a gram-negative facultative intracellular human pathogen with a distinct biphasic lifestyle. One of its primary environmental hosts in the free-living amoeba Acanthamoeba castellanii and its infection by L. pneumophila mimics that seen in human macrophages. Here we present analysis of strand specific sequencing of the transcriptional response of L. pneumophila during exponential and post-exponential broth growth and during the replicative and transmissive phase of infection inside A. castellanii. We extend previous microarray based studies as well as uncovering evidence of a complex regulatory architecture underpinned by numerous non-coding RNAs. Over seventy new non-coding RNAs could be identified; many of them appear to be strain specific and in configurations not previously reported. We discover a family of non-coding RNAs preferentially expressed during infection conditions and identify a second copy of 6S RNA in L. pneumophila. We show that the newly discovered putative 6S RNA as well as a number of other non-coding RNAs show evidence for antisense transcription. The nature and extent of the non-coding RNAs and their expression patterns suggests that these may well play central roles in the regulation of Legionella spp. specific traits and offer clues as to how L. pneumophila adapts to its intracellular niche. The expression profiles outlined in the study have been deposited into Genbank's Gene Expression Omnibus (GEO) database under the series accession GSE27232.-
dc.language.isoenen
dc.relation.urlhttp://www.ncbi.nlm.nih.gov/pubmed/21408607en
dc.subject.meshAcanthamoeba castellanii-
dc.subject.meshBase Sequence-
dc.subject.meshConserved Sequence-
dc.subject.meshCulture Media-
dc.subject.meshGene Expression Profiling-
dc.subject.meshGene Expression Regulation, Bacterial-
dc.subject.meshGenes, Bacterial-
dc.subject.meshHumans-
dc.subject.meshIntracellular Space-
dc.subject.meshLegionella pneumophila-
dc.subject.meshLegionnaires' Disease-
dc.subject.meshMolecular Sequence Data-
dc.subject.meshNucleic Acid Conformation-
dc.subject.meshRNA, Antisense-
dc.subject.meshRNA, Bacterial-
dc.subject.meshRNA, Small Untranslated-
dc.subject.meshSequence Analysis, DNA-
dc.subject.meshSpecies Specificity-
dc.subject.meshTime Factors-
dc.subject.meshTranscription, Genetic-
dc.subject.meshUp-Regulation-
dc.titleSequencing illustrates the transcriptional response of Legionella pneumophila during infection and identifies seventy novel small non-coding RNAs.en
dc.typeArticleen
dc.contributor.departmentUCD Conway Institute for Biomolecular and Biomedical Research, Dublin, Ireland.en
dc.identifier.journalPloS oneen

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