2023
Two cold shock domain containing proteins trigger the development of infectious Trypanosoma brucei
Toh J, Nkouawa A, Dong G, Kolev N, Tschudi C. Two cold shock domain containing proteins trigger the development of infectious Trypanosoma brucei. PLOS Pathogens 2023, 19: e1011438. PMID: 37276216, PMCID: PMC10270622, DOI: 10.1371/journal.ppat.1011438.Peer-Reviewed Original ResearchConceptsCold shock domainMetacyclic parasitesRegulation of transcriptionMicrotubule-based movementProtozoan parasite Trypanosoma bruceiCold shock proteinsRNA-binding proteinC-terminal domainFamily of DNAN-terminal domainDNA damage repairParasite Trypanosoma bruceiSpecific binding motifAmino acid residuesMammalian infectivityNucleocytoplasmic transportDevelopmental programProcyclic parasitesTrypanosoma bruceiCSD2CSD1MRNA stabilityBiological functionsBinding motifBiological processes
2017
The proteome and transcriptome of the infectious metacyclic form of Trypanosoma brucei define quiescent cells primed for mammalian invasion
Christiano R, Kolev NG, Shi H, Ullu E, Walther TC, Tschudi C. The proteome and transcriptome of the infectious metacyclic form of Trypanosoma brucei define quiescent cells primed for mammalian invasion. Molecular Microbiology 2017, 106: 74-92. PMID: 28742275, PMCID: PMC5607103, DOI: 10.1111/mmi.13754.Peer-Reviewed Original ResearchConceptsInfectious metacyclic formsTsetse fly vectorMetacyclic formsVariant surface glycoprotein expression sitesQuiescent cellsGene expression profilesFly vectorsAvailability of nutrientsMammalian invasionsCell surface componentsCell divisionProcyclic trypanosomesMammalian hostsTrypanosoma bruceiMRNA sequencingExpression profilesExpression sitesMetabolic enzymesBloodstream formsInfectious metacyclicsProtein 6TranscriptomeTsetse fliesProteomeProtein levels
2011
The RNA Interference Pathway in Trypanosoma brucei
Ullu E, Kolev N, Barnes R, Tschudi C. The RNA Interference Pathway in Trypanosoma brucei. Nucleic Acids And Molecular Biology 2011, 28: 167-185. DOI: 10.1007/978-3-642-28687-2_8.Peer-Reviewed Original ResearchRNA interference (RNAi) pathwayInterference pathwayEarly divergent eukaryoteMost eukaryotic cellsSequence-specific mannerEukaryotic evolutionDivergent eukaryotesHigher eukaryotesRNAi machineryEukaryotic cellsLong dsRNAsRNAi mechanismTarget transcriptsTrypanosoma bruceiConsequence cellsSpecific defense mechanismsEukaryotesProtozoan parasiteDefense mechanismsTranscriptsCurrent understandingNucleic acidsPathwayHighlight similaritiesSuch mechanisms
2010
The Transcriptome of the Human Pathogen Trypanosoma brucei at Single-Nucleotide Resolution
Kolev NG, Franklin JB, Carmi S, Shi H, Michaeli S, Tschudi C. The Transcriptome of the Human Pathogen Trypanosoma brucei at Single-Nucleotide Resolution. PLOS Pathogens 2010, 6: e1001090. PMID: 20838601, PMCID: PMC2936537, DOI: 10.1371/journal.ppat.1001090.Peer-Reviewed Original ResearchMeSH KeywordsBase SequenceGene Expression ProfilingGenome, BacterialHigh-Throughput Nucleotide SequencingHumansMolecular Sequence DataRNA Polymerase IIRNA PrecursorsRNA, BacterialSequence Homology, Nucleic AcidTranscription Initiation SiteTranscription, GeneticTrypanosoma brucei bruceiTrypanosomiasis, AfricanConceptsGene clusterNew transcriptsHigh-throughput RNA sequencingInitiation siteOrganization of genesRNA polymerase IISimilar genome organizationPutative initiation siteSingle-nucleotide resolutionTranscription initiation siteGene expression patternsPre-mRNA processingNon-coding RNAsGenome organizationPolymerase IIGenomic mapTranscription initiationInsect vectorsEukaryotic promotersMass spectrometry analysisImportant human pathogenMammalian hostsRNA sequencingTrypanosoma bruceiT. brucei
2009
Distinct and overlapping roles for two Dicer-like proteins in the RNA interference pathways of the ancient eukaryote Trypanosoma brucei
Patrick KL, Shi H, Kolev NG, Ersfeld K, Tschudi C, Ullu E. Distinct and overlapping roles for two Dicer-like proteins in the RNA interference pathways of the ancient eukaryote Trypanosoma brucei. Proceedings Of The National Academy Of Sciences Of The United States Of America 2009, 106: 17933-17938. PMID: 19815526, PMCID: PMC2764927, DOI: 10.1073/pnas.0907766106.Peer-Reviewed Original ResearchConceptsDicer-like enzymesRNA interferenceRNAi pathwayBiogenesis of siRNAsDicer-like proteinsNuclear RNAi pathwaySingle Argonaute proteinEnd modificationReverse genetic analysisRNAi-deficient cellsRNA interference (RNAi) pathwayWild-type cellsAncient eukaryotesArgonaute proteinsRNAi responseAncient traitRepeat transcriptsInterference pathwayCytoplasmic proteinsImportant human pathogenTrypanosoma bruceiGenetic analysisRNAi triggersFunctional analysisIntermediate transcripts
2001
RNA interference in Trypanosoma brucei: cloning of small interfering RNAs provides evidence for retroposon-derived 24-26-nucleotide RNAs.
Djikeng A, Shi H, Tschudi C, Ullu E. RNA interference in Trypanosoma brucei: cloning of small interfering RNAs provides evidence for retroposon-derived 24-26-nucleotide RNAs. RNA 2001, 7: 1522-30. PMID: 11720282, PMCID: PMC1370195.Peer-Reviewed Original ResearchConceptsDouble-stranded RNARNA interferenceGene-specific double-stranded RNAHigh-speed pellet fractionStrand-specific probesSmall interfering RNAsTarget RNA degradationDsRNA resultsHousekeeping functionsTrypanosoma bruceiRNA degradationCellular RNAInterfering RNAsNorthern hybridizationWeight complexesSequence analysisHigh-speed pelletRNALong fragmentSiRNAsPellet fractionEnrichment strategyCloningSupernatant fractionFragments
2000
Determinants for cap trimethylation of the U2 small nuclear RNA are not conserved between Trypanosoma brucei and higher eukaryotic organisms
Günzl A, Bindereif A, Ullu E, Tschudi C. Determinants for cap trimethylation of the U2 small nuclear RNA are not conserved between Trypanosoma brucei and higher eukaryotic organisms. Nucleic Acids Research 2000, 28: 3702-3709. PMID: 11000261, PMCID: PMC110770, DOI: 10.1093/nar/28.19.3702.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsBase SequenceBinding SitesCell LineConserved SequenceGuanosineMethylationMolecular Sequence DataMutationNucleic Acid ConformationPrecipitin TestsPromoter Regions, GeneticProtein BindingRegulatory Sequences, Nucleic AcidRibonucleoproteins, Small NuclearRNA CapsRNA, ProtozoanRNA, Small NuclearTransfectionTrypanosoma brucei bruceiConceptsCap trimethylationRibonucleoprotein particleEukaryotic organismsU2 snRNATrypanosoma bruceiU2 small nuclear RNA genesCap structureProtist parasite Trypanosoma bruceiSmall nuclear RNA genesCommon proteinsU2 small nuclear RNANuclear RNA genesHigher eukaryotic organismsRNA polymerase IIRNA polymerase IIISmall nuclear RNAMutant U2 snRNAsSet of proteinsParasite Trypanosoma bruceiSpliceosomal snRNPsRNP assemblyNuclear importPolymerase IIRNA genesSequence motifsCotranscriptional Cap 4 Formation on the Trypanosoma brucei Spliced Leader RNA*
Mair G, Ullu E, Tschudi C. Cotranscriptional Cap 4 Formation on the Trypanosoma brucei Spliced Leader RNA*. Journal Of Biological Chemistry 2000, 275: 28994-28999. PMID: 10880518, DOI: 10.1074/jbc.m004193200.Peer-Reviewed Original ResearchConceptsCap 4 structureSL RNAMRNA cap formationT. brucei cellsSpliced leader RNARNA cap structureSpliced leader sequenceTranscriptional arrestTrypanosomatid protozoaBrucei cellsLeader RNACap 4Cotranscriptional mechanismLeader sequenceTrypanosoma bruceiCap structureRNA transcriptsRibonucleoprotein formationAdenosine residuesPosition 117RNATranscriptsCap formationNucleotidesEukaryotesA new twist in trypanosome RNA metabolism: cis-splicing of pre-mRNA.
Mair G, Shi H, Li H, Djikeng A, Aviles H, Bishop J, Falcone F, Gavrilescu C, Montgomery J, Santori M, Stern L, Wang Z, Ullu E, Tschudi C. A new twist in trypanosome RNA metabolism: cis-splicing of pre-mRNA. RNA 2000, 6: 163-9. PMID: 10688355, PMCID: PMC1369902, DOI: 10.1017/s135583820099229x.Peer-Reviewed Original ResearchConceptsCis-spliced intronsSplice siteGT/AG ruleSmall intergenic regionAncient acquisitionGene arrangementTrypanosome genomeEukaryotic cellsRNA metabolismIntergenic regionIntron removalLeader sequenceTrypanosoma bruceiIntronsNucleotide positionsAG dinucleotideEuglena gracilisTrypanosoma cruziPolymerase geneIdentical positionsPoint mutationsRecent discoveryPAP mRNAGenesMRNA
1998
Trypanosome Capping Enzymes Display a Novel Two-Domain Structure
Silva E, Ullu E, Kobayashi R, Tschudi C. Trypanosome Capping Enzymes Display a Novel Two-Domain Structure. Molecular And Cellular Biology 1998, 18: 4612-4619. PMID: 9671471, PMCID: PMC109047, DOI: 10.1128/mcb.18.8.4612.Peer-Reviewed Original ResearchMeSH KeywordsAmino Acid SequenceAnimalsBase SequenceBinding SitesCloning, MolecularConserved SequenceCrithidia fasciculataDNA, ProtozoanGuanosine MonophosphateHumansMiceMolecular Sequence DataRecombinant Fusion ProteinsRNA NucleotidyltransferasesSequence Homology, Amino AcidTrypanosoma brucei bruceiConceptsSpliceosomal small nuclear RNAsM7G capCapping enzymeTwo-domain structureG capYeast capping enzymesSmall nuclear RNAPhosphate-binding loopAmino-terminal halfCarboxy-terminal halfGTP-binding proteinsDiphosphate endTrans splicingSignature motifTranscript elongationM7G residueSL sequenceTrypanosomatid protozoaEukaryotic mRNAsLeader RNAGene codesRNA modificationsNuclear RNAOverall identityTrypanosoma brucei
1997
Structure of the Trypanosoma brucei U6 snRNA gene promoter
Nakaar V, Günzl A, Ullu E, Tschudi C. Structure of the Trypanosoma brucei U6 snRNA gene promoter. Molecular And Biochemical Parasitology 1997, 88: 13-23. PMID: 9274863, DOI: 10.1016/s0166-6851(97)00078-9.Peer-Reviewed Original ResearchConceptsU6 snRNA gene promoterSnRNA gene promotersB-boxGene promoterA boxSnRNA gene transcriptionInternal control regionRNA polymerase IIITRNA-like genesU6 transcriptionChromatin organizationTranscription extractRNA genesTranscription unitYeast SaccharomycesYeast systemControl regionPolymerase IIIStart siteGene transcriptionNucleotides upstreamPromoter elementsTrypanosoma bruceiIntragenic sequencesSaturation mutagenesis
1996
Trans -splicing in trypanosotnatid protozoa
Ullu E, Tschudi C, Gunzl A. Trans -splicing in trypanosotnatid protozoa. 1996, 115-133. DOI: 10.1093/oso/9780199636020.003.0007.Peer-Reviewed Original ResearchTrans splicingSplice siteT. brucei cellsPolycistronic pre-mRNARNA processing reactionsEnd of transcriptsDifferent variant surface glycoproteinsSeparate RNA moleculesVariant surface glycoproteinSL RNAList of organismsSmall RNAsBrucei cellsSL sequenceTrypanosomatid protozoaMature mRNALeader RNAMature speciesPre-mRNATrypanosoma bruceiRNA moleculesProcessing reactionsRNASurface glycoproteinFirst evidence
1995
Accurate Modification of the Trypanosome Spliced Leader Cap Structure in a Homologous Cell-free System (∗)
Ullu E, Tschudi C. Accurate Modification of the Trypanosome Spliced Leader Cap Structure in a Homologous Cell-free System (∗). Journal Of Biological Chemistry 1995, 270: 20365-20369. PMID: 7657609, DOI: 10.1074/jbc.270.35.20365.Peer-Reviewed Original ResearchConceptsSL RNACap structureCell-free systemRibonucleoprotein particleUnusual cap structureSpliced leader sequenceTrans-splicing activityHomologous cell-free systemRNA maturationTrypanosomatid protozoaNucleotide compositionC. fasciculataLeader sequenceTrypanosoma bruceiCell-free extractsT. bruceiT. cruziRNANucleotides 7Vitro reactionBruceiTwo-dimensional thin-layer chromatographyL. amazonensisLeishmania amazonensisCrithidiaAccurate Transcription of the Trypanosoma brucei U2 Small Nuclear RNA Gene in a Homologous Extract *
Günzl A, Tschudi C, Nakaar V, Ullu E. Accurate Transcription of the Trypanosoma brucei U2 Small Nuclear RNA Gene in a Homologous Extract *. Journal Of Biological Chemistry 1995, 270: 17287-17291. PMID: 7542235, DOI: 10.1074/jbc.270.29.17287.Peer-Reviewed Original ResearchConceptsIntragenic control regionRNA polymerase IIIControl regionPolymerase IIIU2 small nuclear RNA genesTranscription systemSmall nuclear RNA genesGene expressionInsect form trypanosomesNuclear RNA genesU2 snRNA genesSnRNA gene promotersB-box elementsFull transcriptional activitySeries of mutationsSnRNA genesRNA genesInsect formsRNA polymeraseGene promoterTrypanosoma bruceiCell-free extractsTransient expressionBox elementTranscriptional activity
1990
Destruction of U2, U4, or U6 small nuclear RNA blocks Trans splicing in trypanosome cells
Tschudi C, Ullu E. Destruction of U2, U4, or U6 small nuclear RNA blocks Trans splicing in trypanosome cells. Cell 1990, 61: 459-466. PMID: 1692263, DOI: 10.1016/0092-8674(90)90527-l.Peer-Reviewed Original ResearchConceptsTrans splicingU snRNAsPre-mRNAU6 small nuclear RNAU4/U6 snRNPsAlpha-tubulin transcriptsSmall nuclear RNAHigh molecular weight RNAMolecular weight RNASite-directed cleavageSL sequenceLeader RNATrypanosome cellsU6 snRNPsNuclear RNAU6 snRNATrypanosoma bruceiSplicing processSplicingWeight RNASnRNAEarly stepsRNAase HRNAIntrons