Identification of novel non-coding small RNAs from Streptococcus pneumoniae TIGR4 using high-resolution genome tiling arraysReportar como inadecuado




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BMC Genomics

, 11:350

First Online: 03 June 2010Received: 10 November 2009Accepted: 03 June 2010

Abstract

BackgroundThe identification of non-coding transcripts in human, mouse, and Escherichia coli has revealed their widespread occurrence and functional importance in both eukaryotic and prokaryotic life. In prokaryotes, studies have shown that non-coding transcripts participate in a broad range of cellular functions like gene regulation, stress and virulence. However, very little is known about non-coding transcripts in Streptococcus pneumoniae pneumococcus, an obligate human respiratory pathogen responsible for significant worldwide morbidity and mortality. Tiling microarrays enable genome wide mRNA profiling as well as identification of novel transcripts at a high-resolution.

ResultsHere, we describe a high-resolution transcription map of the S. pneumoniae clinical isolate TIGR4 using genomic tiling arrays. Our results indicate that approximately 66% of the genome is expressed under our experimental conditions. We identified a total of 50 non-coding small RNAs sRNAs from the intergenic regions, of which 36 had no predicted function. Half of the identified sRNA sequences were found to be unique to S.pneumoniae genome. We identified eight overrepresented sequence motifs among sRNA sequences that correspond to sRNAs in different functional categories. Tiling arrays also identified approximately 202 operon structures in the genome.

ConclusionsIn summary, the pneumococcal operon structures and novel sRNAs identified in this study enhance our understanding of the complexity and extent of the pneumococcal -expressed- genome. Furthermore, the results of this study open up new avenues of research for understanding the complex RNA regulatory network governing S. pneumoniae physiology and virulence.

Electronic supplementary materialThe online version of this article doi:10.1186-1471-2164-11-350 contains supplementary material, which is available to authorized users.

Ranjit Kumar, Pratik Shah, Edwin Swiatlo, Shane C Burgess, Mark L Lawrence contributed equally to this work.

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Autor: Ranjit Kumar - Pratik Shah - Edwin Swiatlo - Shane C Burgess - Mark L Lawrence - Bindu Nanduri

Fuente: https://link.springer.com/article/10.1186/1471-2164-11-350







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