Transcriptome-wide analysis of trypanosome mRNA decay reveals complex degradation kinetics and suggests a role for co-transcriptional degradation in determining mRNA levels.

Fadda, A and Ryten, M and Droll, D and Rojas, F and Färber, V and Haanstra, JR and Merce, C and Bakker, BM and Matthews, K and Clayton, C (2014) Transcriptome-wide analysis of trypanosome mRNA decay reveals complex degradation kinetics and suggests a role for co-transcriptional degradation in determining mRNA levels. Molecular Microbiology, 94 (2). pp. 307-326. ISSN 0950-382X

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Abstract

African trypanosomes are an excellent system for quantitative modelling of post-transcriptional mRNA control. Transcription is constitutive and polycistronic; individual mRNAs are excised by trans splicing and polyadenylation. We here measure mRNA decay kinetics in two life cycle stages, bloodstream and procyclic forms, by transcription inhibition and RNASeq. Messenger RNAs with short half-lives tend to show initial fast degradation, followed by a slower phase; they are often stabilized by depletion of the 5′–3′ exoribonuclease XRNA. Many longer-lived mRNAs show initial slow degradation followed by rapid destruction: we suggest that the slow phase reflects gradual deadenylation. Developmentally regulated mRNAs often show regulated decay, and switch their decay pattern. Rates of mRNA decay are good predictors of steady state levels for short mRNAs, but mRNAs longer than 3 kb show unexpectedly low abundances. Modelling shows that variations in splicing and polyadenylation rates can contribute to steady-state mRNA levels, but this is completely dependent on competition between processing and co-transcriptional mRNA precursor destruction.

Item Type:
Journal Article
Journal or Publication Title:
Molecular Microbiology
Uncontrolled Keywords:
/dk/atira/pure/subjectarea/asjc/2400/2404
Subjects:
ID Code:
172556
Deposited By:
Deposited On:
12 Jul 2022 08:00
Refereed?:
Yes
Published?:
Published
Last Modified:
12 Jul 2022 08:00