Challenges in defining the functional, non‐coding, expressed genome of members of the Mycobacterium tuberculosis complex

Stiens, Jennifer; Arnvig, Kristine B.; Kendall, Sharon L.; Nobeli, Irene

Abstract

A definitive transcriptome atlas for the non-coding expressed elements of the members of the Mycobacterium tuberculosis complex (MTBC) does not exist. Incomplete lists of non-coding transcripts can be obtained for some of the reference genomes (e.g., M. 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, emphasizing 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.

Citation

Stiens, J., Arnvig, K. B., Kendall, S. L., & Nobeli, I. (2022). Challenges in defining the functional, non‐coding, expressed genome of members of the Mycobacterium tuberculosis complex. Molecular Microbiology, 117(1), 20-31. https://doi.org/10.1111/mmi.14862

• Journal Article Type: Review
• Acceptance Date: Dec 9, 2021
• Online Publication Date: Dec 27, 2021
• Publication Date: 2022-01
• Deposit Date: Feb 4, 2022
• Publicly Available Date: Dec 11, 2022
• Journal: Molecular Microbiology
• Print ISSN: 0950-382X
• Electronic ISSN: 1365-2958
• Publisher: Wiley
• Peer Reviewed: Peer Reviewed
• Volume: 117
• Issue: 1
• Pages: 20-31
• DOI: https://doi.org/10.1111/mmi.14862
• Keywords: Molecular Biology; Microbiology
• Public URL: https://rvc-repository.worktribe.com/output/1557005
• Additional Information: Received: 2021-09-14; Accepted: 2021-12-09; Published: 2021-12-27