Preprint Review Version 1 Preserved in Portico This version is not peer-reviewed

Challenges in Defining the Functional, Non-Coding, Expressed Genome of Pathogenic Mycobacteria

Version 1 : Received: 14 September 2021 / Approved: 15 September 2021 / Online: 15 September 2021 (11:00:59 CEST)

How to cite: Stiens, J.; Arnvig, K.B.; Kendall, S.L.; Nobeli, I. Challenges in Defining the Functional, Non-Coding, Expressed Genome of Pathogenic Mycobacteria. Preprints 2021, 2021090253 (doi: 10.20944/preprints202109.0253.v1). Stiens, J.; Arnvig, K.B.; Kendall, S.L.; Nobeli, I. Challenges in Defining the Functional, Non-Coding, Expressed Genome of Pathogenic Mycobacteria. Preprints 2021, 2021090253 (doi: 10.20944/preprints202109.0253.v1).

Abstract

A definitive transcriptome atlas for the non-coding expressed elements of pathogenic mycobacteria does not exist. Incomplete lists of non-coding transcripts can be obtained for some of the reference genomes (e.g. Mycobacterium tuberculosis H37Rv) but to what extent these transcripts have homologues in closely related species or even strains is not clear. This has implications for the analysis of transcriptomic data; non-coding parts of the transcriptome are often ignored in the absence of formal, reliable annotation. Here, we review the state of our knowledge of non-coding RNAs in pathogenic mycobacteria, emphasising the disparities in the information included in commonly used databases. We then proceed to review ways of combining computational solutions for predicting the non- coding transcriptome with experiments that can help refine and confirm these predictions.

Keywords

Mycobacteria; Mycobacterium tuberculosis; non-coding RNA; RNA-seq; transcriptome

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