The Pseudomonas aeruginosa transcriptome in planktonic cultures and static biofilms using RNA sequencing.

2.50
Hdl Handle:
http://hdl.handle.net/10033/338211
Title:
The Pseudomonas aeruginosa transcriptome in planktonic cultures and static biofilms using RNA sequencing.
Authors:
Dötsch, Andreas; Eckweiler, Denitsa; Schniederjans, Monika; Zimmermann, Ariane; Jensen, Vanessa; Scharfe, Maren; Geffers, Robert; Häussler, Susanne
Abstract:
In this study, we evaluated how gene expression differs in mature Pseudomonas aeruginosa biofilms as opposed to planktonic cells by the use of RNA sequencing technology that gives rise to both quantitative and qualitative information on the transcriptome. Although a large proportion of genes were consistently regulated in both the stationary phase and biofilm cultures as opposed to the late exponential growth phase cultures, the global biofilm gene expression pattern was clearly distinct indicating that biofilms are not just surface attached cells in stationary phase. A large amount of the genes found to be biofilm specific were involved in adaptation to microaerophilic growth conditions, repression of type three secretion and production of extracellular matrix components. Additionally, we found many small RNAs to be differentially regulated most of them similarly in stationary phase cultures and biofilms. A qualitative analysis of the RNA-seq data revealed more than 3000 putative transcriptional start sites (TSS). By the use of rapid amplification of cDNA ends (5'-RACE) we confirmed the presence of three different TSS associated with the pqsABCDE operon, two in the promoter of pqsA and one upstream of the second gene, pqsB. Taken together, this study reports the first transcriptome study on P. aeruginosa that employs RNA sequencing technology and provides insights into the quantitative and qualitative transcriptome including the expression of small RNAs in P. aeruginosa biofilms.
Affiliation:
Helmholtz Centre of infection research; Inhoffenstr. 7; D-38124 Braunschweig; Germany.
Citation:
The Pseudomonas aeruginosa transcriptome in planktonic cultures and static biofilms using RNA sequencing. 2012, 7 (2):e31092 PLoS ONE
Journal:
PloS one
Issue Date:
2012
URI:
http://hdl.handle.net/10033/338211
DOI:
10.1371/journal.pone.0031092
PubMed ID:
22319605
Type:
Article
Language:
en
ISSN:
1932-6203
Appears in Collections:
publications of the departmentment of molecular bacteriology(MOBA)

Full metadata record

DC FieldValue Language
dc.contributor.authorDötsch, Andreasen
dc.contributor.authorEckweiler, Denitsaen
dc.contributor.authorSchniederjans, Monikaen
dc.contributor.authorZimmermann, Arianeen
dc.contributor.authorJensen, Vanessaen
dc.contributor.authorScharfe, Marenen
dc.contributor.authorGeffers, Roberten
dc.contributor.authorHäussler, Susanneen
dc.date.accessioned2015-01-13T14:55:28Z-
dc.date.available2015-01-13T14:55:28Z-
dc.date.issued2012-
dc.identifier.citationThe Pseudomonas aeruginosa transcriptome in planktonic cultures and static biofilms using RNA sequencing. 2012, 7 (2):e31092 PLoS ONEen
dc.identifier.issn1932-6203-
dc.identifier.pmid22319605-
dc.identifier.doi10.1371/journal.pone.0031092-
dc.identifier.urihttp://hdl.handle.net/10033/338211-
dc.description.abstractIn this study, we evaluated how gene expression differs in mature Pseudomonas aeruginosa biofilms as opposed to planktonic cells by the use of RNA sequencing technology that gives rise to both quantitative and qualitative information on the transcriptome. Although a large proportion of genes were consistently regulated in both the stationary phase and biofilm cultures as opposed to the late exponential growth phase cultures, the global biofilm gene expression pattern was clearly distinct indicating that biofilms are not just surface attached cells in stationary phase. A large amount of the genes found to be biofilm specific were involved in adaptation to microaerophilic growth conditions, repression of type three secretion and production of extracellular matrix components. Additionally, we found many small RNAs to be differentially regulated most of them similarly in stationary phase cultures and biofilms. A qualitative analysis of the RNA-seq data revealed more than 3000 putative transcriptional start sites (TSS). By the use of rapid amplification of cDNA ends (5'-RACE) we confirmed the presence of three different TSS associated with the pqsABCDE operon, two in the promoter of pqsA and one upstream of the second gene, pqsB. Taken together, this study reports the first transcriptome study on P. aeruginosa that employs RNA sequencing technology and provides insights into the quantitative and qualitative transcriptome including the expression of small RNAs in P. aeruginosa biofilms.en
dc.language.isoenen
dc.relationeu-repo/grantAgreement/EC/FP7/260276en
dc.rightsopenAccessen
dc.subject.meshAdaptation, Physiologicalen
dc.subject.meshBiofilmsen
dc.subject.meshGene Expression Regulation, Bacterialen
dc.subject.meshPlanktonen
dc.subject.meshPseudomonas aeruginosaen
dc.subject.meshSequence Analysis, RNAen
dc.subject.meshTranscription Initiation Siteen
dc.subject.meshTranscriptomeen
dc.titleThe Pseudomonas aeruginosa transcriptome in planktonic cultures and static biofilms using RNA sequencing.en
dc.typeArticleen
dc.contributor.departmentHelmholtz Centre of infection research; Inhoffenstr. 7; D-38124 Braunschweig; Germany.en
dc.identifier.journalPloS oneen

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