2016
DOI: 10.1186/s12864-016-2624-3
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Integrative analysis of the Trypanosoma brucei gene expression cascade predicts differential regulation of mRNA processing and unusual control of ribosomal protein expression

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 a… Show more

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Cited by 52 publications
(96 citation statements)
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“…To examine developmental regulation of the bound mRNAs, we concentrated on the numbers of ribosome footprints, since these measure both mRNA levels and the densities of bound ribosomes (Antwi et al, ). Across the whole data set, there was no correlation between ZC3H20 or ZC3H21 binding and developmental regulation (Supplementary Figure A,B).…”
Section: Resultsmentioning
confidence: 99%
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“…To examine developmental regulation of the bound mRNAs, we concentrated on the numbers of ribosome footprints, since these measure both mRNA levels and the densities of bound ribosomes (Antwi et al, ). Across the whole data set, there was no correlation between ZC3H20 or ZC3H21 binding and developmental regulation (Supplementary Figure A,B).…”
Section: Resultsmentioning
confidence: 99%
“…“Bind Z20” is the average of bound/unbound for the mRNA; the equivalent values are given for ZC3H21 and RBP10 (Mugo & Clayton, ). "RNA PC/BS" is regulation at the RNA level (Fadda et al, ) and Ribosomes PC/BS" shows the ratios of normalised total ribosomal reads (Antwi et al, ). #Results for META domain protein family, which is absent from the “unique” gene list, were calculated from the raw data.…”
Section: Resultsmentioning
confidence: 99%
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“…The 3'-UTRs of these mRNAs have, respectively, two, five, and seven copies of the RBP10 consensus recognition motif ( Fig 1A). All three mRNAs are more abundant, and considerably better translated, in procyclic forms than in growing bloodstream forms , Dejung et al, 2016, Jensen et al, 2014, Antwi et al, 2016, and their expression is also lower in metacyclic forms than in procyclic forms (Christiano et al, 2017). When ZC3H20 or ZC3H21 are tethered (via a lambdaNpeptide -boxB interaction) to a reporter mRNA in bloodstream forms, expression is stimulated, whereas tethering of ZC3H22 leads to repression (Lueong et al, 2016.…”
Section: Introductionmentioning
confidence: 99%
“…Unlike other organisms, however, trypanosomes lack the ability to control the transcription of individual protein-coding genes [24]. Polymerase II transcription is polycistronic, and monocistronic mRNAs are created by 5' trans splicing of a capped spliced leader ( SL ) and polyadenylation [5].…”
Section: Introductionmentioning
confidence: 99%