ArticleBMC genomics2016
Integrative analysis of the Trypanosoma brucei gene expression cascade predicts differential regulation of mRNA processing and unusual control of ribosomal protein expression.
Article in BMC genomics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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Who cites it
28 citing papers in PubMed, 56 citations in OpenAlex.
- SLAM-seq reveals independent contributions of RNA processing and stability to gene expression in African trypanosomes.Nucleic acids research · 2025Article
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- Synthesis and characterization of I-BET151 derivatives for use in identifying protein targets in the African trypanosome.Current research in chemical biology · 2023Article
- Sequences and proteins that influence mRNA processing in Trypanosoma brucei: Evolutionary conservation of SR-domain and PTB protein functions.PLoS neglected tropical diseases · 2022Article
- TheRNA (New York, N.Y.) · 2022Article
- Interactions of theParasitology · 2022Article
- Several different sequences are implicated in bloodstream-form-specific gene expression in Trypanosoma brucei.PLoS neglected tropical diseases · 2022Article
- Identification of novel proteins and mRNAs differentially bound to the Leishmania Poly(A) Binding Proteins reveals a direct association between PABP1, the RNA-binding protein RBP23 and mRNAs encoding ribosomal proteins.PLoS neglected tropical diseases · 2021Article
- Allele-specific assembly of a eukaryotic genome corrects apparent frameshifts and reveals a lack of nonsense-mediated mRNA decay.NAR genomics and bioinformatics · 2021Article
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- A potential role for a novel ZC3H5 complex in regulating mRNA translation inThe Journal of biological chemistry · 2020Article
- Roles of the Pumilio domain protein PUF3 inParasitology · 2020Article
- The RNA-associated proteins MKT1 and MKT1L form alternative PBP1-containing complexes inThe Journal of biological chemistry · 2020Article
- Polysome Profiling and Metabolic Labeling Methods to Measure Translation in Trypanosoma brucei.Methods in molecular biology (Clifton, N.J.) · 2020Article
- The endoplasmic reticulum-associated mRNA-binding proteins ERBP1 and ERBP2 interact in bloodstream-formPeerJ · 2020Article
- Regulation of gene expression in trypanosomatids: living with polycistronic transcription.Open biology · 2019Article
- Trypanosomes can initiate nuclear export co-transcriptionally.Nucleic acids research · 2019Article
- Article
- Stress susceptibility in Trypanosoma brucei lacking the RNA-binding protein ZC3H30.PLoS neglected tropical diseases · 2018Article
- The suppressive cap-binding complex factor 4EIP is required for normal differentiation.Nucleic acids research · 2018Article
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Authors and funding
13 authors at 7 institutions in 5 countries.
Funding
Abstract
backgroundTrypanosoma brucei is a unicellular parasite which multiplies in mammals (bloodstream form) and Tsetse flies (procyclic form). Trypanosome RNA polymerase II transcription is polycistronic, individual mRNAs being excised by trans splicing and polyadenylation. We previously made detailed measurements of mRNA half-lives in bloodstream and procyclic forms, and developed a mathematical model of gene expression for bloodstream forms. At the whole transcriptome level, many bloodstream-form mRNAs were less abundant than was predicted by the model.
resultsWe refined the published mathematical model and extended it to the procyclic form. We used the model, together with known mRNA half-lives, to predict the abundances of individual mRNAs, assuming rapid, unregulated mRNA processing; then we compared the results with measured mRNA abundances. Remarkably, the abundances of most mRNAs in procyclic forms are predicted quite well by the model, being largely explained by variations in mRNA decay rates and length. In bloodstream forms substantially more mRNAs are less abundant than predicted. We list mRNAs that are likely to show particularly slow or inefficient processing, either in both forms or with developmental regulation. We also measured ribosome occupancies of all mRNAs in trypanosomes grown in the same conditions as were used to measure mRNA turnover. In procyclic forms there was a weak positive correlation between ribosome density and mRNA half-life, suggesting cross-talk between translation and mRNA decay; ribosome density was related to the proportion of the mRNA on polysomes, indicating control of translation initiation. Ribosomal protein mRNAs in procyclics appeared to be exceptionally rapidly processed but poorly translated.
conclusionsLevels of mRNAs in procyclic form trypanosomes are determined mainly by length and mRNA decay, with some control of precursor processing. In bloodstream forms variations in nuclear events play a larger role in transcriptome regulation, suggesting aquisition of new control mechanisms during adaptation to mammalian parasitism.
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