Title |
Genome-Wide Discovery of Small RNAs in Mycobacterium tuberculosis
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Published in |
PLOS ONE, December 2012
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DOI | 10.1371/journal.pone.0051950 |
Pubmed ID | |
Authors |
Paolo Miotto, Francesca Forti, Alessandro Ambrosi, Danilo Pellin, Diogo F. Veiga, Gabor Balazsi, Maria L. Gennaro, Clelia Di Serio, Daniela Ghisotti, Daniela M. Cirillo |
Abstract |
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 5'/3' 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 5' 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. |
X Demographics
Geographical breakdown
Country | Count | As % |
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United Kingdom | 2 | 40% |
United States | 2 | 40% |
Unknown | 1 | 20% |
Demographic breakdown
Type | Count | As % |
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Scientists | 3 | 60% |
Members of the public | 2 | 40% |
Mendeley readers
Geographical breakdown
Country | Count | As % |
---|---|---|
Germany | 2 | 1% |
Netherlands | 1 | <1% |
Italy | 1 | <1% |
South Africa | 1 | <1% |
United Kingdom | 1 | <1% |
United States | 1 | <1% |
Unknown | 134 | 95% |
Demographic breakdown
Readers by professional status | Count | As % |
---|---|---|
Student > Ph. D. Student | 40 | 28% |
Researcher | 37 | 26% |
Student > Master | 21 | 15% |
Student > Postgraduate | 7 | 5% |
Student > Bachelor | 7 | 5% |
Other | 19 | 13% |
Unknown | 10 | 7% |
Readers by discipline | Count | As % |
---|---|---|
Agricultural and Biological Sciences | 60 | 43% |
Biochemistry, Genetics and Molecular Biology | 30 | 21% |
Immunology and Microbiology | 13 | 9% |
Medicine and Dentistry | 8 | 6% |
Engineering | 5 | 4% |
Other | 9 | 6% |
Unknown | 16 | 11% |