Comparative analysis of non-coding RNAs in the antibiotic-producing Streptomyces bacteria

BMC Genomics

Research Article

Matthew J Moody¹  Stephanie E Jones¹  Marie A Elliot¹  Rachel A Young¹ 

[1] Department of Biology and Michael G. DeGroote Institute for Infectious Disease Research, McMaster University, 1280 Main Street West, ON L8S 4K1, Hamilton, Canada;

关键词: Streptomyces;    Non-coding RNA;    sRNA;    Antisense RNA;    Secondary metabolic gene cluster;    Antibiotic;    RNA degradation;   

DOI  :  10.1186/1471-2164-14-558

 received in 2013-05-17, accepted in 2013-08-13,  发布年份 2013

来源: Springer

【 摘 要 】

BackgroundNon-coding RNAs (ncRNAs) are key regulatory elements that control a wide range of cellular processes in all bacteria in which they have been studied. Taking advantage of recent technological innovations, we set out to fully explore the ncRNA potential of the multicellular, antibiotic-producing Streptomyces bacteria.ResultsUsing a comparative RNA sequencing analysis of three divergent model streptomycetes (S. coelicolor, S. avermitilis and S. venezuelae), we discovered hundreds of novel cis-antisense RNAs and intergenic small RNAs (sRNAs). We identified a ubiquitous antisense RNA species that arose from the overlapping transcription of convergently-oriented genes; we termed these RNA species ‘cutoRNAs’, for c onvergent u nt ranslated o verlapping RNAs. Conservation between different classes of ncRNAs varied greatly, with sRNAs being more conserved than antisense RNAs. Many species-specific ncRNAs, including many distinct cutoRNA pairs, were located within antibiotic biosynthetic clusters, including the actinorhodin, undecylprodigiosin, and coelimycin clusters of S. coelicolor, the chloramphenicol cluster of S. venezuelae, and the avermectin cluster of S. avermitilis.ConclusionsThese findings indicate that ncRNAs, including a novel class of antisense RNA, may exert a previously unrecognized level of regulatory control over antibiotic production in these bacteria. Collectively, this work has dramatically expanded the ncRNA repertoire of three Streptomyces species and has established a critical foundation from which to investigate ncRNA function in this medically and industrially important bacterial genus.

【 授权许可】

Unknown   
© Moody et al.; licensee BioMed Central Ltd. 2013. This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.