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. 2018 Feb 2;8:2215. doi: 10.1038/s41598-018-20661-1

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© The Author(s) 2018

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Categorization, alternative transcription, and analysis of 5′-UTRs in S. aureus USA300 TCH1516. (A) Conserved prokaryotic -35, -16, and -10 promoter elements were found in 1,638, 1640, and 1640 TSSs with p-value less than 0.05 (MEME), respectively. (B) A conserved SigB binding sites were found from 29 TSSs (p-value of 1.51 × 10⁻⁸). (C) Distribution of 5′UTR length of primary and secondary transcripts. Over 75% of TSSs have 5′UTR length below 100 nt. (D) AG-rich Shine-Dalgarno sequence (SD) was found from 5′UTR of 1,481 protein-coding transcripts. The spacer length between start codon and SD sequence showed mean length of 6.9 nt. (E) An orphan TSS (TSS_263) transcribes novel transcript encoding PSMα2, 3, and 4. (F) A transcriptional terminator was predicted at downstream of the TSS_1468. The short transcript generated by TSS_1468 encodes a novel ncRNA RsaOG conserved in S. aureus.

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