ArticleRNA (New York, N.Y.)2011
The role of the 5'-3' exoribonuclease XRNA in transcriptome-wide mRNA degradation.
Article in RNA (New York, N.Y.), 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 41 papers.
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41 citing papers in PubMed, 54 citations in OpenAlex.
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- A high-throughput protein tagging toolkit that retains endogenous untranslated regions for studying gene regulation in kinetoplastids.Open biology · 2025Article
- A unique mRNA decapping complex in trypanosomes.Nucleic acids research · 2023Article
- tRNARNA (New York, N.Y.) · 2023Article
- Interactions of theParasitology · 2022Article
- Genome-wide analysis of lncRNA stability in human.PLoS computational biology · 2021Article
- Organising the cell cycle in the absence of transcriptional control: Dynamic phosphorylation co-ordinates the Trypanosoma brucei cell cycle post-transcriptionally.PLoS pathogens · 2019Article
- Regulation of gene expression in trypanosomatids: living with polycistronic transcription.Open biology · 2019Article
- Nutritional stress targets LeishIF4E-3 to storage granules that contain RNA and ribosome components in Leishmania.PLoS neglected tropical diseases · 2019Article
- Exploiting CRISPR-Cas9 technology to investigate individual histone modifications.Nucleic acids research · 2018Article
- Transcriptomes of Trypanosoma brucei rhodesiense from sleeping sickness patients, rodents and culture: Effects of strain, growth conditions and RNA preparation methods.PLoS neglected tropical diseases · 2018Article
- Cell cycle synchronisation of Trypanosoma brucei by centrifugal counter-flow elutriation reveals the timing of nuclear and kinetoplast DNA replication.Scientific reports · 2017Article
- The role of genomic location and flanking 3'UTR in the generation of functional levels of variant surface glycoprotein in Trypanosoma brucei.Molecular microbiology · 2017Article
- The ApaH-like phosphatase TbALPH1 is the major mRNA decapping enzyme of trypanosomes.PLoS pathogens · 2017Article
- Simultaneous detection of mRNA transcription and decay intermediates by dual colour single mRNA FISH on subcellular resolution.Nucleic acids research · 2017Article
- Characterization of RBP9 and RBP10, two developmentally regulated RNA-binding proteins inOpen biology · 2017Article
- Two flagellar BAR domain proteins in Trypanosoma brucei with stage-specific regulation.Scientific reports · 2016Article
- Article
- Transcriptomes of newly-isolated Trypanosoma brucei rhodesiense reveal hundreds of mRNAs that are co-regulated with stumpy-form markers.BMC genomics · 2015Article
- Transcriptomic profiling of gene expression and RNA processing during Leishmania major differentiation.Nucleic acids research · 2015Article
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3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The steady-state level of each mRNA in a cell is a balance between synthesis and degradation. Here, we use high-throughput RNA sequencing (RNASeq) to determine the relationship between mRNA degradation and mRNA abundance on a transcriptome-wide scale. The model organism used was the bloodstream form of Trypanosoma brucei, a protist that lacks regulation of RNA polymerase II initiation. The mRNA half-lives varied over two orders of magnitude, with a median half-life of 13 min for total (rRNA-depleted) mRNA. Data for poly(A)+ RNA yielded shorter half-lives than for total RNA, indicating that removal of the poly(A) tail was usually the first step in degradation. Depletion of the major 5'-3' exoribonuclease, XRNA, resulted in the stabilization of most mRNAs with half-lives under 30 min. Thus, on a transcriptome-wide scale, degradation of most mRNAs is initiated by deadenylation. Trypanosome mRNA levels are strongly influenced by gene copy number and mRNA half-life: Very abundant mRNAs that are required throughout the life-cycle may be encoded by multicopy genes and have intermediate-to-long half-lives; those encoding ribosomal proteins, with one to two gene copies, are exceptionally stable. Developmentally regulated transcripts with a lower abundance in the bloodstream forms than the procyclic forms had half-lives around the median, whereas those with a higher abundance in the bloodstream forms than the procyclic forms, such as those encoding glycolytic enzymes, had longer half-lives.
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