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m6A-Dependent RNA Dynamics in T Cell Differentiation

1
Center for Genomic Science, Fondazione Istituto Italiano di Tecnologia, 20139 Milan, Italy
2
Physics Department and INFN, University of Turin, 10125 Turin, Italy
*
Author to whom correspondence should be addressed.
Genes 2019, 10(1), 28; https://doi.org/10.3390/genes10010028
Received: 22 November 2018 / Revised: 15 December 2018 / Accepted: 27 December 2018 / Published: 8 January 2019
(This article belongs to the Special Issue RNA Modifications)
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Abstract

N6-methyladenosine (m6A) is the most abundant RNA modification. It has been involved in the regulation of RNA metabolism, including degradation and translation, in both physiological and disease conditions. A recent study showed that m6A-mediated degradation of key transcripts also plays a role in the control of T cells homeostasis and IL-7 induced differentiation. We re-analyzed the omics data from that study and, through the integrative analysis of total and nascent RNA-seq data, we were able to comprehensively quantify T cells RNA dynamics and how these are affected by m6A depletion. In addition to the expected impact on RNA degradation, we revealed a broader effect of m6A on RNA dynamics, which included the alteration of RNA synthesis and processing. Altogether, the combined action of m6A on all major steps of the RNA life-cycle closely re-capitulated the observed changes in the abundance of premature and mature RNA species. Ultimately, our re-analysis extended the findings of the initial study, focused on RNA stability, and proposed a yet unappreciated role for m6A in RNA synthesis and processing dynamics. View Full-Text
Keywords: RNA-seq; RNA dynamics; m6A; RNA modifications; RNA metabolic labeling; mathematical modeling RNA-seq; RNA dynamics; m6A; RNA modifications; RNA metabolic labeling; mathematical modeling
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Furlan, M.; Galeota, E.; De Pretis, S.; Caselle, M.; Pelizzola, M. m6A-Dependent RNA Dynamics in T Cell Differentiation. Genes 2019, 10, 28.

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