Only few small RNAs (sRNAs) have been characterized in Mycobacterium tuberculosis and their role in regulatory networks is still poorly understood. Here we report a genome-wide characterization of sRNAs in M. tuberculosis integrating experimental and computational analyses. Global RNA-seq analysis of exponentially growing cultures of M. tuberculosis H37Rv had previously identified 1373 sRNA species. In the present report we show that 258 (19%) of these were also identified by microarray expression. This set included 22 intergenic sRNAs, 84 sRNAs mapping within 59/39 UTRs, and 152 antisense sRNAs. Analysis of promoter and terminator consensus sequences identified sigma A promoter consensus sequences for 121 sRNAs (47%), terminator consensus motifs for 22 sRNAs (8.5%), and both motifs for 35 sRNAs (14%). Additionally, 20/23 candidates were visualized by Northern blot analysis and 59 end mapping by primer extension confirmed the RNA-seq data. We also used a computational approach utilizing functional enrichment to identify the pathways targeted by sRNA regulation. We found that antisense sRNAs preferentially regulated transcription of membrane-bound proteins. Genes putatively regulated by novel cis-encoded sRNAs were enriched for two-component systems and for functional pathways involved in hydrogen transport on the membrane.
Genome-wide discovery of small RNAs in Mycobacterium tuberculosis / P. Miotto, F. Forti, A. Ambrosi, D. Pellin, D.F. Veiga, G. Balazsi, M.L. Gennaro, C. Di Serio, D. Ghisotti, D.M. Cirillo. - In: PLOS ONE. - ISSN 1932-6203. - 7:12(2012 Dec), pp. e51950.1-e51950.11.
|Titolo:||Genome-wide discovery of small RNAs in Mycobacterium tuberculosis|
FORTI, FRANCESCA (Secondo)
GHISOTTI, DANIELA ERICA (Penultimo)
|Parole Chiave:||Gene Expression Profiling ; 5' Untranslated Regions ; Cluster Analysis ; Consensus Sequence ; Gene Expression Regulation, Bacterial ; Gene Regulatory Networks ; Molecular Sequence Annotation ; Mycobacterium tuberculosis ; Nucleotide Motifs ; RNA, Antisense ; RNA, Bacterial ; Reproducibility of Results ; Signal Transduction ; Terminator Regions, Genetic|
|Settore Scientifico Disciplinare:||Settore BIO/18 - Genetica|
Settore BIO/19 - Microbiologia Generale
|Data di pubblicazione:||dic-2012|
|Digital Object Identifier (DOI):||http://dx.doi.org/10.1371/journal.pone.0051950|
|Appare nelle tipologie:||01 - Articolo su periodico|