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Identification of small RNAs abundant in Burkholderia cenocepacia biofilms reveal putative regulators with a potential role in carbon and iron metabolism

Andrea Sass (UGent) , Sanne Kiekens (UGent) and Tom Coenye (UGent)
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Abstract
Small RNAs play a regulatory role in many central metabolic processes of bacteria, as well as in developmental processes such as biofilm formation. Small RNAs of Burkholderia cenocepacia, an opportunistic pathogenic beta-proteobacterium, are to date not well characterised. To address that, we performed genome-wide transcriptome structure analysis of biofilm grown B. cenocepacia J2315. 41 unannotated short transcripts were identified in intergenic regions of the B. cenocepacia genome. 15 of these short transcripts, highly abundant in biofilms, widely conserved in Burkholderia sp. and without known function, were selected for in-depth analysis. Expression profiling showed that most of these sRNAs are more abundant in biofilms than in planktonic cultures. Many are also highly abundant in cells grown in minimal media, suggesting they are involved in adaptation to nutrient limitation and growth arrest. Their computationally predicted targets include a high proportion of genes involved in carbon metabolism. Expression and target genes of one sRNA suggest a potential role in regulating iron homoeostasis. The strategy used for this study to detect sRNAs expressed in B. cenocepacia biofilms has successfully identified sRNAs with a regulatory function.
Keywords
ESCHERICHIA-COLI, CEPACIA COMPLEX, COMPARATIVE GENOMICS, GENE-EXPRESSION, MESSENGER-RNA, BACTERIA, J2315, HFQ, PERSISTENCE, PREDICTION

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MLA
Sass, Andrea, Sanne Kiekens, and Tom Coenye. “Identification of Small RNAs Abundant in Burkholderia Cenocepacia Biofilms Reveal Putative Regulators with a Potential Role in Carbon and Iron Metabolism.” SCIENTIFIC REPORTS 7 (2017): n. pag. Print.
APA
Sass, A., Kiekens, S., & Coenye, T. (2017). Identification of small RNAs abundant in Burkholderia cenocepacia biofilms reveal putative regulators with a potential role in carbon and iron metabolism. SCIENTIFIC REPORTS, 7.
Chicago author-date
Sass, Andrea, Sanne Kiekens, and Tom Coenye. 2017. “Identification of Small RNAs Abundant in Burkholderia Cenocepacia Biofilms Reveal Putative Regulators with a Potential Role in Carbon and Iron Metabolism.” Scientific Reports 7.
Chicago author-date (all authors)
Sass, Andrea, Sanne Kiekens, and Tom Coenye. 2017. “Identification of Small RNAs Abundant in Burkholderia Cenocepacia Biofilms Reveal Putative Regulators with a Potential Role in Carbon and Iron Metabolism.” Scientific Reports 7.
Vancouver
1.
Sass A, Kiekens S, Coenye T. Identification of small RNAs abundant in Burkholderia cenocepacia biofilms reveal putative regulators with a potential role in carbon and iron metabolism. SCIENTIFIC REPORTS. 2017;7.
IEEE
[1]
A. Sass, S. Kiekens, and T. Coenye, “Identification of small RNAs abundant in Burkholderia cenocepacia biofilms reveal putative regulators with a potential role in carbon and iron metabolism,” SCIENTIFIC REPORTS, vol. 7, 2017.
@article{8543365,
  abstract     = {Small RNAs play a regulatory role in many central metabolic processes of bacteria, as well as in developmental processes such as biofilm formation. Small RNAs of Burkholderia cenocepacia, an opportunistic pathogenic beta-proteobacterium, are to date not well characterised. To address that, we performed genome-wide transcriptome structure analysis of biofilm grown B. cenocepacia J2315. 41 unannotated short transcripts were identified in intergenic regions of the B. cenocepacia genome. 15 of these short transcripts, highly abundant in biofilms, widely conserved in Burkholderia sp. and without known function, were selected for in-depth analysis. Expression profiling showed that most of these sRNAs are more abundant in biofilms than in planktonic cultures. Many are also highly abundant in cells grown in minimal media, suggesting they are involved in adaptation to nutrient limitation and growth arrest. Their computationally predicted targets include a high proportion of genes involved in carbon metabolism. Expression and target genes of one sRNA suggest a potential role in regulating iron homoeostasis. The strategy used for this study to detect sRNAs expressed in B. cenocepacia biofilms has successfully identified sRNAs with a regulatory function.},
  articleno    = {15665},
  author       = {Sass, Andrea and Kiekens, Sanne and Coenye, Tom},
  issn         = {2045-2322},
  journal      = {SCIENTIFIC REPORTS},
  keywords     = {ESCHERICHIA-COLI,CEPACIA COMPLEX,COMPARATIVE GENOMICS,GENE-EXPRESSION,MESSENGER-RNA,BACTERIA,J2315,HFQ,PERSISTENCE,PREDICTION},
  language     = {eng},
  pages        = {13},
  title        = {Identification of small RNAs abundant in Burkholderia cenocepacia biofilms reveal putative regulators with a potential role in carbon and iron metabolism},
  url          = {http://dx.doi.org/10.1038/s41598-017-15818-3},
  volume       = {7},
  year         = {2017},
}

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