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Differentiation of ncRNAs from small mRNAs in Escherichia coli O157:H7 EDL933 (EHEC) by combined RNAseq and RIBOseq – ryhB encodes the regulatory RNA RyhB and a peptide, RyhP

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2017

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Neuhaus, Klaus
Landstorfer, Richard
Schober, Steffen
Wright, Patrick R.
Smith, Cameron
Backofen, Rolf
Wecko, Romy
Scherer, Siegfried

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BMC Genomics. 2017, 18(1), 216. eISSN 1471-2164. Available under: doi: 10.1186/s12864-017-3586-9

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While NGS allows rapid global detection of transcripts, it remains difficult to distinguish ncRNAs from short mRNAs. To detect potentially translated RNAs, we developed an improved protocol for bacterial ribosomal footprinting (RIBOseq). This allowed distinguishing ncRNA from mRNA in EHEC. A high ratio of ribosomal footprints per transcript (ribosomal coverage value, RCV) is expected to indicate a translated RNA, while a low RCV should point to a non-translated RNA.

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ISO 690NEUHAUS, Klaus, Richard LANDSTORFER, Svenja SIMON, Steffen SCHOBER, Patrick R. WRIGHT, Cameron SMITH, Rolf BACKOFEN, Romy WECKO, Daniel A. KEIM, Siegfried SCHERER, 2017. Differentiation of ncRNAs from small mRNAs in Escherichia coli O157:H7 EDL933 (EHEC) by combined RNAseq and RIBOseq – ryhB encodes the regulatory RNA RyhB and a peptide, RyhP. In: BMC Genomics. 2017, 18(1), 216. eISSN 1471-2164. Available under: doi: 10.1186/s12864-017-3586-9
BibTex
@article{Neuhaus2017Diffe-38838,
  year={2017},
  doi={10.1186/s12864-017-3586-9},
  title={Differentiation of ncRNAs from small mRNAs in Escherichia coli O157:H7 EDL933 (EHEC) by combined RNAseq and RIBOseq – ryhB encodes the regulatory RNA RyhB and a peptide, RyhP},
  number={1},
  volume={18},
  journal={BMC Genomics},
  author={Neuhaus, Klaus and Landstorfer, Richard and Simon, Svenja and Schober, Steffen and Wright, Patrick R. and Smith, Cameron and Backofen, Rolf and Wecko, Romy and Keim, Daniel A. and Scherer, Siegfried},
  note={Article Number: 216}
}
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