Differential expression of small RNAs from Burkholderia thailandensis in response to varying environmental and stress conditions

Stubben, Chris J.; Micheva-Viteva, Sofiya N.; Shou, Yulin; Buddenborg, Sarah K.; Dunbar, John M.; Hong-Geller, Elizabeth

doi:10.1186/1471-2164-15-385

Differential expression of small RNAs from Burkholderia thailandensis in response to varying environmental and stress conditions

Journal Article · Mon May 19 00:00:00 EDT 2014 · BMC Genomics

DOI:https://doi.org/10.1186/1471-2164-15-385· OSTI ID:1626434

Stubben, Chris J. ^[1]; Micheva-Viteva, Sofiya N. ^[2]; Shou, Yulin ^[2]; Buddenborg, Sarah K. ^[2]; Dunbar, John M. ^[2]; Hong-Geller, Elizabeth ^[2]

Los Alamos National Lab. (LANL), Los Alamos, NM (United States). Bioscience Division; DOE/OSTI
Los Alamos National Lab. (LANL), Los Alamos, NM (United States). Bioscience Division

Background: Bacterial small RNAs (sRNAs) regulate gene expression by base-pairing with downstream target mRNAs to attenuate translation of mRNA into protein at the post-transcriptional level. In response to specific environmental changes, sRNAs can modulate the expression levels of target genes, thus enabling adaptation of cellular physiology. Results: We profiled sRNA expression in the Gram-negative bacteria Burkholderia thailandensis cultured under 54 distinct growth conditions using a Burkholderia-specific microarray that contains probe sets to all intergenic regions greater than 90 bases. We identified 38 novel sRNAs and performed experimental validation on five sRNAs that play a role in adaptation of Burkholderia to cell stressors. In particular, the trans-encoded BTH_s1 and s39 exhibited differential expression profiles dependent on growth phase and cell stimuli, such as antibiotics and serum. Furthermore, knockdown of the highly-expressed BTH_s39 by antisense transcripts reduced B. thailandensis cell growth and attenuated host immune response upon infection, indicating that BTH_s39 functions in bacterial metabolism and adaptation to the host. In addition, expression of cis-encoded BTH_s13 and s19 found in the 5' untranslated regions of their cognate genes correlated with tight regulation of gene transcript levels. This sRNA-mediated downregulation of gene expression may be a conserved mechanism of post-transcriptional gene dosage control. Conclusions: These studies provide a broad analysis of differential Burkholderia sRNA expression profiles and illustrate the complexity of bacterial gene regulation in response to different environmental stress conditions.

View Accepted Manuscript (DOE)

Research Organization:: Univ. of Washington, Seattle, WA (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER). Biological Systems Science Division

Grant/Contract Number:: FG02-00ER41132

OSTI ID:: 1626434

Journal Information:: BMC Genomics, Journal Name: BMC Genomics Journal Issue: 1 Vol. 15; ISSN 1471-2164

Publisher:: SpringerCopyright Statement

Country of Publication:: United States

Language:: English

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59 BASIC BIOLOGICAL SCIENCES
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Biotechnology & Applied Microbiology
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Gene expression
Genetics & Heredity
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Small RNAs
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Differential expression of small RNAs from Burkholderia thailandensis in response to varying environmental and stress conditions

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