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
Characterization 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 motifsA 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
Exonic Sequences in the 5′ Untranslated Region of α-Tubulin mRNA Modulate trans Splicing in Trypanosoma brucei
López-Estraño C, Tschudi C, Ullu E. Exonic Sequences in the 5′ Untranslated Region of α-Tubulin mRNA Modulate trans Splicing in Trypanosoma brucei. Molecular And Cellular Biology 1998, 18: 4620-4628. PMID: 9671472, PMCID: PMC109048, DOI: 10.1128/mcb.18.8.4620.Peer-Reviewed Original ResearchTrypanosome 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 bruceiPhysical and transcriptional analysis of the Trypanosoma brucei genome reveals a typical eukaryotic arrangement with close interspersionof RNA polymerase II- and III-transcribed genes
Marchetti M, Tschudi C, Silva E, Ullu E. Physical and transcriptional analysis of the Trypanosoma brucei genome reveals a typical eukaryotic arrangement with close interspersionof RNA polymerase II- and III-transcribed genes. Nucleic Acids Research 1998, 26: 3591-3598. PMID: 9671824, PMCID: PMC147737, DOI: 10.1093/nar/26.15.3591.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsBase SequenceChloramphenicol O-AcetyltransferaseDNA, ProtozoanEukaryotic CellsGene DosageGenome, ProtozoanMolecular Sequence DataPromoter Regions, GeneticProtozoan ProteinsRibonucleoprotein, U2 Small NuclearRibonucleoproteins, Small NuclearRNA Polymerase IIRNA Polymerase IIIRNA, MessengerTranscription, GeneticTrypanosoma brucei bruceiConceptsPol II transcription unitsPol III genesSmall nuclear RNAU3 small nuclear RNACAT gene cassettePol IITranscription unitRNA genesTranscriptional domainsPol IIICAT mRNAU2 small nuclear RNARNA gene lociPol II genesRNA polymerase IIGene cassettesMRNA processing signalsPolymerase IITranscriptional mapTranscriptional analysisCosmid clonesNuclear RNADistinct initiation sitesCAT geneGene locus
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 mutagenesisTranscription of the Trypanosoma brucei spliced leader RNA gene is dependent only on the presence of upstream regulatory elements
Günzl A, Ullu E, Dörner M, Fragoso S, Hoffmann K, Milner J, Morita Y, Nguu E, Vanacova S, Wünsch S, Dare A, Kwon H, Tschudi C. Transcription of the Trypanosoma brucei spliced leader RNA gene is dependent only on the presence of upstream regulatory elements. Molecular And Biochemical Parasitology 1997, 85: 67-76. PMID: 9108549, DOI: 10.1016/s0166-6851(96)02816-2.Peer-Reviewed Original Research
1995
Accurate 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
1994
Upstream tRNA genes are essential for expression of small nuclear and cytoplasmic RNA genes in trypanosomes.
Nakaar V, Dare A, Hong D, Ullu E, Tschudi C. Upstream tRNA genes are essential for expression of small nuclear and cytoplasmic RNA genes in trypanosomes. Molecular And Cellular Biology 1994, 14: 6736-6742. PMID: 7523857, PMCID: PMC359204, DOI: 10.1128/mcb.14.10.6736.Peer-Reviewed Original ResearchConceptsSmall RNA genesTRNA genesRNA genesSmall nuclear RNARegulatory elementsU6 small nuclear RNAUpstream tRNA genesIntragenic promoter elementsT. brucei cellsU6 snRNA genesRNA polymerase IIIB-box elementsSnRNA lociGenome organizationSnRNA genesRNA lociSmall RNAsBrucei cellsB-boxSubstitution mutantsPolymerase IIIFamily TrypanosomatidaeNuclear RNAGene transcriptionPromoter elementsRNA polymerase III-mediated transcription of the trypanosome U2 small nuclear RNA gene is controlled by both intragenic and extragenic regulatory elements.
Fantoni A, Dare A, Tschudi C. RNA polymerase III-mediated transcription of the trypanosome U2 small nuclear RNA gene is controlled by both intragenic and extragenic regulatory elements. Molecular And Cellular Biology 1994, 14: 2021-2028. PMID: 8114733, PMCID: PMC358562, DOI: 10.1128/mcb.14.3.2021.Peer-Reviewed Original ResearchMeSH KeywordsAmanitinsAnimalsBase SequenceConsensus SequenceDNA, ProtozoanGenes, ProtozoanMolecular Sequence DataPromoter Regions, GeneticRegulatory Sequences, Nucleic AcidRNA Polymerase IIIRNA, Small NuclearSequence AlignmentSequence DeletionSequence Homology, Nucleic AcidTranscription, GeneticTrypanosomaConceptsU2 small nuclear RNA genesSmall nuclear RNA genesNuclear RNA genesU2 snRNA genesSnRNA genesRNA genesCis-acting regulatory sequencesRNA polymerase III transcriptsInsect form trypanosomesSnRNA gene expressionRNA polymerase IIInternal control regionRNA polymerase IIIPolymerase III transcriptsTranscription start siteIII-like enzymeTRNA genesPolymerase IIRNA polymeraseRegulatory sequencesU2 snRNAControl regionPolymerase IIIStart siteRegulatory elementsA common pyrimidine-rich motif governs trans-splicing and polyadenylation of tubulin polycistronic pre-mRNA in trypanosomes.
Matthews K, Tschudi C, Ullu E. A common pyrimidine-rich motif governs trans-splicing and polyadenylation of tubulin polycistronic pre-mRNA in trypanosomes. Genes & Development 1994, 8: 491-501. PMID: 7907303, DOI: 10.1101/gad.8.4.491.Peer-Reviewed Original Research
1993
2'-O-methyl RNA oligonucleotides identify two functional elements in the trypanosome spliced leader ribonucleoprotein particle
Ullu E, Tschudi C. 2'-O-methyl RNA oligonucleotides identify two functional elements in the trypanosome spliced leader ribonucleoprotein particle. Journal Of Biological Chemistry 1993, 268: 13068-13073. PMID: 8514747, DOI: 10.1016/s0021-9258(19)38620-x.Peer-Reviewed Original Research
1990
Permeable trypanosome cells as a model system for transceiption and trans-splicing
Ullu E, Tschudi C. Permeable trypanosome cells as a model system for transceiption and trans-splicing. Nucleic Acids Research 1990, 18: 3319-3326. PMID: 2356121, PMCID: PMC330939, DOI: 10.1093/nar/18.11.3319.Peer-Reviewed Original ResearchConceptsAlpha-tubulin RNASL RNAFree linear moleculesHigh molecular weight RNAMolecular weight RNARNA speciesLeader RNATrypanosome cellsDifferent genesWeight RNARNATranscriptionModel systemCritical rolePermeable cellsConcentrations of monovalentIntronsCellsGenesLesser extentHigh potassium concentrationSpeciesTrypanosomaMgCl2 concentrationLinear moleculesConserved sequences in the U2 snRNA-encoding genes of Kinetoplastida do not include the putative branchpoint recognition region
Tschudi C, Williams S, Ullu E. Conserved sequences in the U2 snRNA-encoding genes of Kinetoplastida do not include the putative branchpoint recognition region. Gene 1990, 91: 71-77. PMID: 2401409, DOI: 10.1016/0378-1119(90)90164-m.Peer-Reviewed Original ResearchConceptsU2 small nuclear RNASmall nuclear RNAU2 genesEvolutionary conservationOrder KinetoplastidaConserved sequencesNuclear RNASequence variationFlanking regionsNuclear extractsRecognition sequenceKinetoplastidaUpstream elementRecognition regionGenesRNACorresponding sequenceLeishmania mexicana amazonensisSequenceT. congolenseTrypanosoma congolenseBiosynthesisNucleotidesProteinCongolense
1988
The U6 small nuclear RNA from Trypanosoma brucei
Tschudi C, Krainer A, Ullu E. The U6 small nuclear RNA from Trypanosoma brucei. Nucleic Acids Research 1988, 16: 11375-11375. PMID: 3060859, PMCID: PMC339025, DOI: 10.1093/nar/16.23.11375.Peer-Reviewed Original Research
1986
The U2 RNA analogue of Trypanosoma brucei gambiense: implications for a splicing mechanism in trypanosomes
Tschudi C, Richards F, Ullu E. The U2 RNA analogue of Trypanosoma brucei gambiense: implications for a splicing mechanism in trypanosomes. Nucleic Acids Research 1986, 14: 8893-8903. PMID: 3786140, PMCID: PMC311918, DOI: 10.1093/nar/14.22.8893.Peer-Reviewed Original ResearchConceptsU2 RNASpliced leader RNASingle-copy geneSignificant sequence homologyMaturation of mRNAMammalian counterpartsCopy geneU RNALeader RNASplicing mechanismSequence homologySecondary structureRNATrypanosomesGenesRNA analogSplicingHomologyTrypanosoma brucei gambiensePossible interactionsMRNABrucei gambienseMaturation
1985
Calmodulin genes in trypanosomes are tandemly repeated and produce multiple mRNAs with a common 5' leader sequence.
Tschudi C, Young A, Ruben L, Patton C, Richards F. Calmodulin genes in trypanosomes are tandemly repeated and produce multiple mRNAs with a common 5' leader sequence. Proceedings Of The National Academy Of Sciences Of The United States Of America 1985, 82: 3998-4002. PMID: 3858856, PMCID: PMC397921, DOI: 10.1073/pnas.82.12.3998.Peer-Reviewed Original Research