Genome‐wide identification of novel small RNAs in Pseudomonas aeruginosa

Publication: Research - peer-reviewJournal article – Annual report year: 2012

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Genome‐wide identification of novel small RNAs in Pseudomonas aeruginosa. / Gómez Lozano, María; Marvig, Rasmus Lykke; Molin, Søren; Long, Katherine.

In: Environmental Microbiology, Vol. 14, No. 8, 2012, p. 2006-2016.

Publication: Research - peer-reviewJournal article – Annual report year: 2012

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Gómez Lozano, María; Marvig, Rasmus Lykke; Molin, Søren; Long, Katherine / Genome‐wide identification of novel small RNAs in Pseudomonas aeruginosa.

In: Environmental Microbiology, Vol. 14, No. 8, 2012, p. 2006-2016.

Publication: Research - peer-reviewJournal article – Annual report year: 2012

Bibtex

@article{5d2d81e2a40e44df9df6aaacfba8a3e0,
title = "Genome‐wide identification of novel small RNAs in Pseudomonas aeruginosa",
publisher = "Wiley-Blackwell Publishing Ltd.",
author = "{Gómez Lozano}, María and Marvig, {Rasmus Lykke} and Søren Molin and Katherine Long",
year = "2012",
doi = "10.1111/j.1462-2920.2012.02759.x",
volume = "14",
number = "8",
pages = "2006--2016",
journal = "Environmental Microbiology",
issn = "1462-2912",

}

RIS

TY - JOUR

T1 - Genome‐wide identification of novel small RNAs in Pseudomonas aeruginosa

A1 - Gómez Lozano,María

A1 - Marvig,Rasmus Lykke

A1 - Molin,Søren

A1 - Long,Katherine

AU - Gómez Lozano,María

AU - Marvig,Rasmus Lykke

AU - Molin,Søren

AU - Long,Katherine

PB - Wiley-Blackwell Publishing Ltd.

PY - 2012

Y1 - 2012

N2 - Bacterial small regulatory RNAs (sRNAs) function in post‐transcriptional control of gene expression and control a variety of processes including metabolic reactions, stress responses and pathogenesis in response to environmental signals. A variety of approaches have been used previously to identify 44 sRNAs in the opportunistic human pathogen Pseudomonas aeruginosa. In this work, RNA sequencing (RNA‐seq) is used to identify novel transcripts in P. aeruginosa involving a combination of three different sequencing libraries. Almost all known sRNAs and over 500 novel intergenic sRNAs are identified with this approach. Although the use of three libraries increased the number of novel transcripts identified, there were significant differences in the subset of transcripts detected in each library, underscoring the importance of library preparation strategy and relative sRNA abundance for successful sRNA detection. Nearly 90% of the novel sRNAs have no orthologous bacterial sequences outside of P. aeruginosa, supporting a limited degree of sequence conservation and rapid evolution of sRNAs at the species level. We anticipate that the data will be useful for the study of regulatory sRNAs in bacteria and that the approach described here may be applied to identify sRNAs in any bacterium under different growth and stress conditions.

AB - Bacterial small regulatory RNAs (sRNAs) function in post‐transcriptional control of gene expression and control a variety of processes including metabolic reactions, stress responses and pathogenesis in response to environmental signals. A variety of approaches have been used previously to identify 44 sRNAs in the opportunistic human pathogen Pseudomonas aeruginosa. In this work, RNA sequencing (RNA‐seq) is used to identify novel transcripts in P. aeruginosa involving a combination of three different sequencing libraries. Almost all known sRNAs and over 500 novel intergenic sRNAs are identified with this approach. Although the use of three libraries increased the number of novel transcripts identified, there were significant differences in the subset of transcripts detected in each library, underscoring the importance of library preparation strategy and relative sRNA abundance for successful sRNA detection. Nearly 90% of the novel sRNAs have no orthologous bacterial sequences outside of P. aeruginosa, supporting a limited degree of sequence conservation and rapid evolution of sRNAs at the species level. We anticipate that the data will be useful for the study of regulatory sRNAs in bacteria and that the approach described here may be applied to identify sRNAs in any bacterium under different growth and stress conditions.

U2 - 10.1111/j.1462-2920.2012.02759.x

DO - 10.1111/j.1462-2920.2012.02759.x

JO - Environmental Microbiology

JF - Environmental Microbiology

SN - 1462-2912

IS - 8

VL - 14

SP - 2006

EP - 2016

ER -