Vockenhuber, Michael-Paul ; Sharma, Cynthia M. ; Statt, Michaela G. ; Schmidt, Denis ; Xu, Zhenjiang ; Dietrich, Sascha ; Liesegang, Heiko ; Mathews, David H. ; Suess, Beatrix (2011)
Deep sequencing-based identification of small non-coding RNAs in Streptomyces coelicolor.
In: RNA biology, 8 (3)
Artikel, Bibliographie
Kurzbeschreibung (Abstract)
Streptomyces coelicolor is considered the model organism among Gram positive, GC rich bacteria. Its genome has been sequenced but little is known about the occurrence and distribution of small non-coding RNAs in this biotechnologically relevant organism. Using deep sequencing we analyzed the transcriptome at the end of exponential growth, which corresponds to the onset of secondary metabolism. We mapped 193 transcriptional start sites of mRNA genes and identified putative new and alternative open reading frames. We identified 63 non-coding RNAs including 29 cis encoded antisense RNAs, and confirmed expression for 11, most of them being growth-phase dependent. A comparison between the sequencing results and bioinformatic sRNA predictions using Dynalign and RNAz revealed only a small overlap between the different approaches.
| Typ des Eintrags: | Artikel |
|---|---|
| Erschienen: | 2011 |
| Autor(en): | Vockenhuber, Michael-Paul ; Sharma, Cynthia M. ; Statt, Michaela G. ; Schmidt, Denis ; Xu, Zhenjiang ; Dietrich, Sascha ; Liesegang, Heiko ; Mathews, David H. ; Suess, Beatrix |
| Art des Eintrags: | Bibliographie |
| Titel: | Deep sequencing-based identification of small non-coding RNAs in Streptomyces coelicolor. |
| Sprache: | Englisch |
| Publikationsjahr: | 2011 |
| Titel der Zeitschrift, Zeitung oder Schriftenreihe: | RNA biology |
| Jahrgang/Volume einer Zeitschrift: | 8 |
| (Heft-)Nummer: | 3 |
| Kurzbeschreibung (Abstract): | Streptomyces coelicolor is considered the model organism among Gram positive, GC rich bacteria. Its genome has been sequenced but little is known about the occurrence and distribution of small non-coding RNAs in this biotechnologically relevant organism. Using deep sequencing we analyzed the transcriptome at the end of exponential growth, which corresponds to the onset of secondary metabolism. We mapped 193 transcriptional start sites of mRNA genes and identified putative new and alternative open reading frames. We identified 63 non-coding RNAs including 29 cis encoded antisense RNAs, and confirmed expression for 11, most of them being growth-phase dependent. A comparison between the sequencing results and bioinformatic sRNA predictions using Dynalign and RNAz revealed only a small overlap between the different approaches. |
| Fachbereich(e)/-gebiet(e): | 10 Fachbereich Biologie > Synthetic Genetic Circuits (2020 umbenannt in "Synthetic RNA biology") 10 Fachbereich Biologie |
| Hinterlegungsdatum: | 22 Feb 2012 10:18 |
| Letzte Änderung: | 05 Mär 2013 09:58 |
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