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 ResearchMeSH KeywordsAnimalsCold Shock Proteins and PeptidesCold-Shock ResponseMammalsProtozoan ProteinsRNA-Binding ProteinsRNA, MessengerTrypanosoma brucei bruceiConceptsCold 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
2022
Identification and functional implications of pseudouridine RNA modification on small noncoding RNAs in the mammalian pathogen Trypanosoma brucei
Rajan KS, Adler K, Doniger T, Cohen-Chalamish S, Aharon-Hefetz N, Aryal S, Pilpel Y, Tschudi C, Unger R, Michaeli S. Identification and functional implications of pseudouridine RNA modification on small noncoding RNAs in the mammalian pathogen Trypanosoma brucei. Journal Of Biological Chemistry 2022, 298: 102141. PMID: 35714765, PMCID: PMC9283944, DOI: 10.1016/j.jbc.2022.102141.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsHost-Parasite InteractionsLife Cycle StagesPseudouridineRNA, RibosomalRNA, Small NucleolarRNA, Small UntranslatedRNA, TransferTrypanosoma brucei bruceiConceptsRNA modificationsLife stagesStage-specific regulationGenome-wide approachesSmall nucleolar RNAsΨ modificationsSmall noncoding RNAsDifferent host environmentsProtein translocationD snoRNAsRRNA modificationVault RNARRNA processingNucleolar RNAsRiboMeth-seqNoncoding RNAsMammalian hostsTrypanosoma bruceiProtein synthesisHost environmentRNAFunctional implicationsTRNABruceiParasitesAn assembly of nuclear bodies associates with the active VSG expression site in African trypanosomes
Budzak J, Jones R, Tschudi C, Kolev NG, Rudenko G. An assembly of nuclear bodies associates with the active VSG expression site in African trypanosomes. Nature Communications 2022, 13: 101. PMID: 35013170, PMCID: PMC8748868, DOI: 10.1038/s41467-021-27625-6.Peer-Reviewed Original Research
2021
Identification of positive and negative regulators in the stepwise developmental progression towards infectivity in Trypanosoma brucei
Toh JY, Nkouawa A, Sánchez SR, Shi H, Kolev NG, Tschudi C. Identification of positive and negative regulators in the stepwise developmental progression towards infectivity in Trypanosoma brucei. Scientific Reports 2021, 11: 5755. PMID: 33707699, PMCID: PMC7952579, DOI: 10.1038/s41598-021-85225-2.Peer-Reviewed Original ResearchConceptsGene expression regulatory networksMetacyclic variant surface glycoproteinSingle RNA-binding proteinExpression regulatory networksRNA-binding proteinTsetse fly vectorBloodstream form trypanosomesAlanine-rich proteinPutative nucleic acidRNA-seq dataSubset of transcriptsCell linesDevelopmental progressionVariant surface glycoproteinMitochondrial genomeOverexpression cell linesFunction phenotypesRegulatory networksProcyclic trypanosomesTrypanosoma bruceiNegative regulatorRich proteinImportant humanMetacyclic parasitesGenes
2019
The vault RNA of Trypanosoma brucei plays a role in the production of trans-spliced mRNA
Kolev NG, Rajan KS, Tycowski KT, Toh JY, Shi H, Lei Y, Michaeli S, Tschudi C. The vault RNA of Trypanosoma brucei plays a role in the production of trans-spliced mRNA. Journal Of Biological Chemistry 2019, 294: 15559-15574. PMID: 31439669, PMCID: PMC6816085, DOI: 10.1074/jbc.ra119.008580.Peer-Reviewed Original ResearchConceptsTelomerase-associated protein 1Vault RNAY RNAsRNA quality controlRNA polymerase IIISmall nuclear RNATrans-spliced mRNAPermeabilized cell systemNcRNA repertoireRNP biogenesisMRNA metabolismRNA speciesSequence similarityRNA classesMammalian cellsNuclear RNAPolymerase IIIRo functionTrypanosoma bruceiVtRNAsGene expressionRo proteinBloodstream formsRNACell nucleiSmall nucleolar RNAs controlling rRNA processing in Trypanosoma brucei
Chikne V, Rajan K, Shalev-Benami M, Decker K, Cohen-Chalamish S, Madmoni H, Biswas VK, Gupta S, Doniger T, Unger R, Tschudi C, Ullu E, Michaeli S. Small nucleolar RNAs controlling rRNA processing in Trypanosoma brucei. Nucleic Acids Research 2019, 47: 2609-2629. PMID: 30605535, PMCID: PMC6411936, DOI: 10.1093/nar/gky1287.Peer-Reviewed Original ResearchMeSH KeywordsNucleic Acid ConformationRNA PrecursorsRNA Processing, Post-TranscriptionalRNA, RibosomalRNA, Small NuclearTranscription, GeneticTrypanosoma brucei bruceiConceptsSmall nucleolar RNAsRRNA processingNucleolar RNAsLarge subunit ribosomal RNAProtein exit tunnelMost eukaryotesRRNA modificationBiogenesis stepsRRNA transcriptionExit tunnelRibosomal RNARRNA precursorRNA piecesSnoRNAsProcessing eventsRRNA positionsMaturation eventsRNAGuide modificationsEukaryotesLSURRNATranscriptionHigher number
2018
A single-point mutation in the RNA-binding protein 6 generates Trypanosoma brucei metacyclics that are able to progress to bloodstream forms in vitro
Shi H, Butler K, Tschudi C. A single-point mutation in the RNA-binding protein 6 generates Trypanosoma brucei metacyclics that are able to progress to bloodstream forms in vitro. Molecular And Biochemical Parasitology 2018, 224: 50-56. PMID: 30055184, PMCID: PMC6147148, DOI: 10.1016/j.molbiopara.2018.07.011.Peer-Reviewed Original Research
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
2016
Transcriptome Profiling of Trypanosoma brucei Development in the Tsetse Fly Vector Glossina morsitans
Savage AF, Kolev NG, Franklin JB, Vigneron A, Aksoy S, Tschudi C. Transcriptome Profiling of Trypanosoma brucei Development in the Tsetse Fly Vector Glossina morsitans. PLOS ONE 2016, 11: e0168877. PMID: 28002435, PMCID: PMC5176191, DOI: 10.1371/journal.pone.0168877.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsElectron Transport Complex IVGene Expression ProfilingGene LibraryHigh-Throughput Nucleotide SequencingInsect VectorsIntestinal MucosaLife Cycle StagesMembrane GlycoproteinsProtozoan ProteinsProventriculusSalivary GlandsSequence Analysis, RNATranscriptomeTrypanosoma brucei bruceiTsetse FliesUp-RegulationConceptsSalivary gland transcriptomeMetacyclic VSGsInsect vectorsHigh-throughput RNA sequencingBlood-feeding tsetse fliesDigenetic life cycleRNA-binding proteinGene ontology analysisAlanine-rich proteinCytochrome oxidase complexTsetse fliesMidgut transcriptomeGlobal regulatorDNA metabolismTrypanosome developmentOntology analysisDNA replicationSignal transductionTransporter familyMammalian hostsRNA sequencingDistinct tissuesTranscript levelsTranscriptomeRich protein
2012
Developmental Progression to Infectivity in Trypanosoma brucei Triggered by an RNA-Binding Protein
Kolev NG, Ramey-Butler K, Cross GA, Ullu E, Tschudi C. Developmental Progression to Infectivity in Trypanosoma brucei Triggered by an RNA-Binding Protein. Science 2012, 338: 1352-1353. PMID: 23224556, PMCID: PMC3664091, DOI: 10.1126/science.1229641.Peer-Reviewed Original Research
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
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 fractionFragmentsIn vivo epitope tagging of Trypanosoma brucei genes using a one step PCR-based strategy
Shen S, Arhin G, Ullu E, Tschudi C. In vivo epitope tagging of Trypanosoma brucei genes using a one step PCR-based strategy. Molecular And Biochemical Parasitology 2001, 113: 171-173. PMID: 11254965, DOI: 10.1016/s0166-6851(00)00383-2.Peer-Reviewed Original ResearchCharacterization of a candidate Trypanosoma brucei U1 small nuclear RNA gene
Djikeng A, Ferreira L, D'Angelo M, Dolezal P, Lamb T, Murta S, Triggs V, Ulbert S, Villarino A, Renzi S, Ullu E, Tschudi C. Characterization of a candidate Trypanosoma brucei U1 small nuclear RNA gene. Molecular And Biochemical Parasitology 2001, 113: 109-115. PMID: 11254959, DOI: 10.1016/s0166-6851(00)00384-4.Peer-Reviewed Original Research
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 ResearchMeSH KeywordsAnimalsRNA CapsRNA, ProtozoanRNA, Spliced LeaderTranscription, GeneticTrypanosoma brucei bruceiConceptsCap 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 formationNucleotidesEukaryotesGenetic interference in Trypanosoma brucei by heritable and inducible double-stranded RNA.
Shi H, Djikeng A, Mark T, Wirtz E, Tschudi C, Ullu E. Genetic interference in Trypanosoma brucei by heritable and inducible double-stranded RNA. RNA 2000, 6: 1069-76. PMID: 10917601, PMCID: PMC1369981, DOI: 10.1017/s1355838200000297.Peer-Reviewed Original ResearchMeSH KeywordsActinsAnimalsDNA-Directed RNA PolymerasesDose-Response Relationship, DrugDown-RegulationElectroporationGene ExpressionGenetic EngineeringPhenotypePlasmidsPromoter Regions, GeneticProtein Synthesis InhibitorsProteinsRNA, Double-StrandedTetracyclineTime FactorsTransfectionTrypanosoma brucei bruceiTubulinViral ProteinsConceptsDouble-stranded RNARNA interferenceGenetic interferenceExpression of dsRNAActin mRNAT7 RNA polymerase systemRNA polymerase systemSpecific mRNA degradationStem-loop structureStable cell linesTetracycline-inducible promoterRNAi responseMolecular dissectionMRNA degradationInducible fashionPolymerase systemCellular divisionGene expressionTransfection efficiencyTransient interferenceCell generationCell linesRNAOrganismsInterferenceImport of proteins into the trypanosome nucleus and their distribution at karyokinesis
Marchetti M, Tschudi C, Kwon H, Wolin S, Ullu E. Import of proteins into the trypanosome nucleus and their distribution at karyokinesis. Journal Of Cell Science 2000, 113: 899-906. PMID: 10671379, DOI: 10.1242/jcs.113.5.899.Peer-Reviewed Original ResearchConceptsNuclear localization sequenceMonopartite nuclear localization sequenceBipartite nuclear localization sequenceFusion proteinSpecific nuclear localization sequencesImport of proteinsEarly divergent eukaryoteGreen fluorescent proteinDivergent eukaryotesOrganism's proteinsChromosome segregationBeta-galactosidase reporterTrypanosomatid protozoaProtein homologueTrypanosomal proteinsHistone H2BHistone H2B.Localization sequenceNuclear divisionLa proteinC-terminusTrypanosome nucleusMitotic cellsFluorescent proteinATP synthesisA 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
Double-stranded RNA induces mRNA degradation in Trypanosoma brucei
Ngô H, Tschudi C, Gull K, Ullu E. Double-stranded RNA induces mRNA degradation in Trypanosoma brucei. Proceedings Of The National Academy Of Sciences Of The United States Of America 1998, 95: 14687-14692. PMID: 9843950, PMCID: PMC24510, DOI: 10.1073/pnas.95.25.14687.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsMicroscopy, ElectronRNARNA, MessengerTransfectionTrypanosoma brucei bruceiTubulinConceptsMRNA degradationUntranslated regionFlagellar attachment zoneMRNA 5' untranslated regionAlpha-tubulin synthesisImportant protozoan parasitesCaenorhabditis elegansAlpha-tubulin mRNACellular mRNAsTrypanosome cellsGenetic interferenceCytoskeletal structuresCleavage furrowDsRNA transfectionSame phenotypeCytokinesisComplex cortical structureFlagellar axonemeTubulin mRNAPlasmid vectorProtozoan parasiteVivo expressionAttachment zoneMRNADsRNA