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Atlas of 5'P mRNA decay in bacteria

https://doi.org/10.17044/SCILIFELAB.22284709
Regulation of mRNA stability is a central process in gene expression. Here, report an atlas of 5´ monophosphorylated mRNA decay intermediates (5´P) in 96 species. We use those data to demonstrate that in species with 5´-3´exonuclease activity, the exoribonuclease RNase J follows the trailing ribosome, producing an in vivo single-nucleotide toeprint of its 5´ position. While in other species, ribosome position alters endonucleolytic cleavage sites. Our work demonstrates the universal connection between RNA decay and translation and paves the way for use of metadegradome sequencing to investigate post-transcriptional regulation of unculturable species present and complex microbial communities. Data was analyzed using our fivepseq software.  Improved computational analysis of ribosome dynamics from 5′P degradome data using fivepseq (https://doi.org/10.1093/nargab/lqaa099) . Lilit Nersisyan, Maria Ropat & Vicent Pelechano. NAR Genomics and Bioinformatics, Volume 2, Issue 4, December 2020, lqaa099, https://doi.org/10.1093/nargab/lqaa099
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https://doi.org/10.17044/SCILIFELAB.22284709

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2016-01842_VR

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Impact of transcriptome complexity on gene expression dynamics

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2020-01480_VR

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Genomic dissection of cellular plasticity and transcriptional memory in drug tolerance.

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2021-06112_VR

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Development of a novel tool for diagnosis and prevention of antimicrobial resistance

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2019-02335_VR

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Roles of snoRNAs in chromatin organization, gene expression and DNA repair

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845495

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Ribosomal frameshifts as a novel mechanism to control RNA turnover in stress

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742804

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Dissecting quantitative traits and their underlying genetic interactions via systematic genome editing

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81911530167

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Study of complex transcriptomics in human diseases

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81870187

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Full-length RNA sequencing studies the role of alternative splicing in dilated cardiomyopathy

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2021-01683_VR

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Harnessing the power of the vaginal microbiome to combat Human Papillomavirus (HPV) infections and related diseases

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https://doi.org/10.1093/nargab/lqaa099

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10.1101/2021.04.08.439066

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