2002
A one‐step method for in vitro production of tRNA transcripts
Korencić D, Söll D, Ambrogelly A. A one‐step method for in vitro production of tRNA transcripts. Nucleic Acids Research 2002, 30: e105-e105. PMID: 12384607, PMCID: PMC137149, DOI: 10.1093/nar/gnf104.Peer-Reviewed Original ResearchConceptsTRNA transcriptsT7 RNA polymeraseLarge-scale plasmid preparationTRNA genesMicrobial genomesTRNA functionsDNA promoterRNA polymeraseRNA moleculesT7 promoterBiochemical characterizationTranscription templateDNA templateNew enzymeTranscriptsLarge oligonucleotidesTranscriptionGood substratePromoterShort oligonucleotidesEnzymatic digestionRapid productionPlasmid preparationsGenomeOligonucleotide
1989
A selection for mutants of the RNA polymerase III transcription apparatus: PCF1 stimulates transcription of tRNA and 5S RNA genes.
Willis I, Schmidt P, Söll D. A selection for mutants of the RNA polymerase III transcription apparatus: PCF1 stimulates transcription of tRNA and 5S RNA genes. The EMBO Journal 1989, 8: 4281-4288. PMID: 2686985, PMCID: PMC401634, DOI: 10.1002/j.1460-2075.1989.tb08614.x.Peer-Reviewed Original ResearchMeSH KeywordsBase SequenceCloning, MolecularDNA-Directed RNA PolymerasesGene ExpressionGenes, DominantGenes, FungalKineticsMolecular Sequence DataMutationOligonucleotide ProbesPlasmidsPromoter Regions, GeneticRNA Polymerase IIIRNA, RibosomalRNA, Ribosomal, 5SRNA, TransferSaccharomyces cerevisiaeSaccharomycetalesSchizosaccharomycesSelection, GeneticSuppression, GeneticTemplates, GeneticTranscription, GeneticConceptsTRNA genesMutant strainTranscription of mutantsTranscription of tRNARNA polymerase IIISuppressor tRNA geneDominant mutant geneWild-type strainStable complexesTranscription apparatusRNA genesStable complex formationUpstream geneTRNA suppressorsPositive regulatorSteady-state levelsComplex assemblyGenetic approachesPolymerase IIIGene transcriptionInternal promoterMutant geneTime-course experimentsTranscriptionGenesMultiple Mutations of the First Gene of a Dimeric tRNA Gene Abolish in Vitro tRNA Gene Transcription
Nichols M, Bell J, Klekamp M, Weil P, Söll D. Multiple Mutations of the First Gene of a Dimeric tRNA Gene Abolish in Vitro tRNA Gene Transcription. Journal Of Biological Chemistry 1989, 264: 17084-17090. PMID: 2676999, DOI: 10.1016/s0021-9258(18)71462-2.Peer-Reviewed Original ResearchMeSH KeywordsCloning, MolecularEndopeptidasesMutationPromoter Regions, GeneticRegulatory Sequences, Nucleic AcidRNA Polymerase IIIRNA, FungalRNA, TransferRNA, Transfer, MetRNA, Transfer, SerSaccharomyces cerevisiaeSchizosaccharomycesTranscription Factor TFIIIBTranscription FactorsTranscription Factors, TFIIITranscription, GeneticConceptsMethionine tRNA geneTRNA genesGene transcriptionInitiator methionine tRNA geneRNA polymerase III systemRNA polymerase III transcriptionMutant tRNA genesTRNA gene transcriptionAdditional protein factorsSerine tRNA genePolymerase III transcriptionRNA polymerase IIIICR sequenceTranscription regulationTRNA locusFirst geneExpression initiatesProtein factorsTranscription studiesPolymerase IIINucleotides 8Gene promoterDetectable transcriptsTranscriptionGenes
1986
The nucleotide sequence, localization and transcriptional properties of a tRNACUGLeu gene from Drosophila melanogaster
Glew L, Lo R, Recce T, Nichols M, Söll D, Bell J. The nucleotide sequence, localization and transcriptional properties of a tRNACUGLeu gene from Drosophila melanogaster. Gene 1986, 44: 307-314. PMID: 2946625, DOI: 10.1016/0378-1119(86)90195-2.Peer-Reviewed Original Research
1985
Transcription of a Drosophila tRNAArg gene in yeast extract: 5′-flanking sequence dependence for transcription in a heterologous system
Schaack J, Söll D. Transcription of a Drosophila tRNAArg gene in yeast extract: 5′-flanking sequence dependence for transcription in a heterologous system. Nucleic Acids Research 1985, 13: 2803-2814. PMID: 3889849, PMCID: PMC341195, DOI: 10.1093/nar/13.8.2803.Peer-Reviewed Original ResearchConceptsDrosophila Kc cell extractS. cerevisiae extractTRNA genesCerevisiae extractDrosophila tRNAArg geneCell extractsDrosophila tRNA genesDrosophila Kc cellsTRNAArg geneTranscription extractActive transcriptionTranscription kineticsExtracts of SaccharomycesSteady-state levelsKc cellsHeterologous systemsS. cerevisiaeSequence requirementsLag phaseTranscriptionGenesHeterologous combinationsPARGPosition 21DeletionTwo control systems modulate the level of glutaminyl-tRNA synthetase in Escherichia coli
Cheung A, Watson L, Söll D. Two control systems modulate the level of glutaminyl-tRNA synthetase in Escherichia coli. Journal Of Bacteriology 1985, 161: 212-218. PMID: 2578447, PMCID: PMC214858, DOI: 10.1128/jb.161.1.212-218.1985.Peer-Reviewed Original ResearchConceptsGlutaminyl-tRNA synthetaseEscherichia coli glutaminyl-tRNA synthetaseBeta-galactosidase structural genePost-transcriptional regulationStructural geneTranscriptional controlRegulatory mutationsTranslational levelGln-10Metabolic regulationEscherichia coliSynthetaseVivo expressionTranscriptionGrowth conditionsRegulationMRNA levelsRegulatory studiesSynthetase levelsMutationsGlnGrowth rateGenesPromoterColi
1984
Transcriptionally active and inactive gene repeats within the D. meianogaster 5S RNA gene cluster
Sharp S, Garcia A, Cooley L, Söll D. Transcriptionally active and inactive gene repeats within the D. meianogaster 5S RNA gene cluster. Nucleic Acids Research 1984, 12: 7617-7632. PMID: 6093044, PMCID: PMC320189, DOI: 10.1093/nar/12.20.7617.Peer-Reviewed Original ResearchConceptsEfficiency of transcriptionRRNA gene copiesHigh transcription efficiencyTwo-nucleotide deletionD. melanogasterGene repeatRNA genesGene clusterPrimary transcriptGene copiesTranscription functionTranscription efficiencyTemplate activityCell extractsTranscriptionDNAPosition 28Position 86DNA typesRepeat unitsDeletionSame sequenceMelanogasterRRNAGenesIn vivo and in vitro transcription of the Escherichia coli glutaminyl-tRNA synthetase gene.
Cheung A, Söll D. In vivo and in vitro transcription of the Escherichia coli glutaminyl-tRNA synthetase gene. Journal Of Biological Chemistry 1984, 259: 9953-9958. PMID: 6086662, DOI: 10.1016/s0021-9258(17)42791-8.Peer-Reviewed Original ResearchConceptsGlutaminyl-tRNA synthetaseGlutaminyl-tRNA synthetase geneTranslation initiation codon AUGInitiation codon AUGPresence of tRNATermination codon UAAGlnS geneTerminator structureTranscription initiationSynthetase geneTranscription initiatesCodons UAARegulatory signalsCodon AUGTermination sitesTranscription productsSequence analysisStructure upstreamStructural regionsTranscriptionGenesTranscriptsSynthetaseMRNAGlnMutations affecting excision of the intron from a eukaryotic dimeric tRNA precursor.
Willis I, Hottinger H, Pearson D, Chisholm V, Leupold U, Söll D. Mutations affecting excision of the intron from a eukaryotic dimeric tRNA precursor. The EMBO Journal 1984, 3: 1573-1580. PMID: 6430697, PMCID: PMC557561, DOI: 10.1002/j.1460-2075.1984.tb02013.x.Peer-Reviewed Original ResearchConceptsTRNA precursorsDimeric tRNA precursorSerine tRNA geneEfficiency of splicingPrecursor tRNA processingSingle base changeTRNA genesTRNASer geneTRNA processingGene transcriptionNucleotide sequenceUGA mutationsD-loopMutant geneGenesBase changesExtra armMutationsIntronsTranscriptionVivo systemDimeric precursorSequenceTRNASerSplicingThe extent of a eukaryotic tRNA gene. 5‘- and 3‘-flanking sequence dependence for transcription and stable complex formation.
Schaack J, Sharp S, Dingermann T, Burke DJ, Cooley L, Söll D. The extent of a eukaryotic tRNA gene. 5‘- and 3‘-flanking sequence dependence for transcription and stable complex formation. Journal Of Biological Chemistry 1984, 259: 1461-1467. PMID: 6693417, DOI: 10.1016/s0021-9258(17)43429-6.Peer-Reviewed Original ResearchConceptsStable complex formationBase pairsDrosophila Kc cell extractSequence requirementsCell extractsEukaryotic tRNA genesStable transcription complexesHeLa cell extractsTRNA genesComplex formationTranscription complexArg genesEfficient transcriptionTranscription assaysTranscription propertiesCell-free extractsTranscriptionHomologous systemGenesSequenceSequence dependenceCellular sourceExtractAssaysPairs
1983
Each element of the Drosophila tRNA Arg gene split promoter directs transcription in Xenopus oocytes
Sharp S, Dingermann T, Schaack J, Sharp J, Burke D, DeRobertis E, Söll D. Each element of the Drosophila tRNA Arg gene split promoter directs transcription in Xenopus oocytes. Nucleic Acids Research 1983, 11: 8677-8690. PMID: 6561520, PMCID: PMC326616, DOI: 10.1093/nar/11.24.8677.Peer-Reviewed Original ResearchConceptsD-control regionDrosophila tRNAArg geneTRNAArg geneEukaryotic tRNA gene transcriptionXenopus oocytesRNA polymerase III transcription factorT-control regionEukaryotic tRNA genesTRNA gene transcriptionIntragenic control regionTranscription initiation siteSpecific DNA sequencesTRNA genesTranscription initiationArg genesControl regionTranscription factorsGene transcriptionDNA sequencesMutant formsOocyte nucleusSequence 5Initiation siteGenesTranscriptionPartial purification of Drosophila Kc cell RNA polymerase III transcription components. Evidence for shared 5 S RNA and tRNA gene factors.
Burke D, Schaack J, Sharp S, Söll D. Partial purification of Drosophila Kc cell RNA polymerase III transcription components. Evidence for shared 5 S RNA and tRNA gene factors. Journal Of Biological Chemistry 1983, 258: 15224-15231. PMID: 6197413, DOI: 10.1016/s0021-9258(17)43797-5.Peer-Reviewed Original ResearchConceptsS RNA geneTranscription componentsRNA polymerase IIIRNA genesPolymerase IIIStable transcription complex formationReconstitution of transcriptionTranscription complex formationDrosophila Kc cellsCM-Sepharose column chromatographyDrosophila tRNAKc cellsTranscription factorsS RNATRNAGene factorsCompetition experimentsTranscriptionGenesComplex formationPartial purificationDEAE-SephadexReconstitutionCofractionationColumn chromatographyTranscription of eukaryotic tRNA genes in vitro. I. Analysis of control regions using a competition assay.
Sharp S, Dingermann T, Schaack J, DeFranco D, Söll D. Transcription of eukaryotic tRNA genes in vitro. I. Analysis of control regions using a competition assay. Journal Of Biological Chemistry 1983, 258: 2440-2446. PMID: 6549757, DOI: 10.1016/s0021-9258(18)32945-4.Peer-Reviewed Original ResearchConceptsT-control regionD-control regionTRNA gene transcriptionTRNAArg geneControl regionTranscription factorsCompetitive abilityDeletion mutantsGene transcriptionEukaryotic tRNA gene transcriptionDrosophila tRNAArg geneEukaryotic tRNA genesStem regionIntragenic control regionEfficiency of transcriptionTRNA genesTranscription extractTRNA productD-loopTranscription levelsWild typeTranscriptionT-loopGenesCompetition assays
1982
The 5- flanking sequences of Drosophila tRNAArg genes control their in vitro transcription in a Drosophila cell extract.
Dingermann T, Burke D, Sharp S, Schaack J, Söll D. The 5- flanking sequences of Drosophila tRNAArg genes control their in vitro transcription in a Drosophila cell extract. Journal Of Biological Chemistry 1982, 257: 14738-14744. PMID: 6924656, DOI: 10.1016/s0021-9258(18)33342-8.Peer-Reviewed Original ResearchConceptsDrosophila tRNAArg geneTRNAArg geneDrosophila Kc cell extractFlanking sequencesTranscription efficiencyCell extractsDrosophila cell extractsEfficiency of transcriptionRegion 42ATranscriptional componentsGene clusterDrosophila extractsEfficient transcriptionTranscription factorsChromosome 2HeLa extractsTranscriptionGenesHeLa cellsSpecific sequencesHomologous extractsSequenceArgDeletionExtract
1981
Identification of regulatory sequences contained in the 5'-flanking region of Drosophila lysine tRNA2 genes.
DeFranco D, Sharp S, Söll D. Identification of regulatory sequences contained in the 5'-flanking region of Drosophila lysine tRNA2 genes. Journal Of Biological Chemistry 1981, 256: 12424-12429. PMID: 6913581, DOI: 10.1016/s0021-9258(18)43290-5.Peer-Reviewed Original ResearchConceptsTRNA genesTranscriptional repressionMature tRNATemplate activityDrosophila tRNA genesLow template activityInsertion of nucleotidesPoor transcriptional activityRegulatory sequencesDeletion analysisNucleotides 23Transcriptional activityAdditional nucleotidesGenesTRNARepressionNucleotidesTranscriptionComplete lossSequenceDeletionOligonucleotideOligonucleotide sequencesRegionActivity
1980
Dimeric tRNA precursors in yeast
Schmidt O, Mao J, Ogden R, Beckmann J, Sakano H, Abelson J, Söll D. Dimeric tRNA precursors in yeast. Nature 1980, 287: 750-752. PMID: 6253814, DOI: 10.1038/287750a0.Peer-Reviewed Original ResearchConceptsDimeric tRNA precursorTRNA precursorsDNA fragmentsYeast tRNA genesDifferent genomic regionsNucleotide sequence analysisTRNA genesSaccharomyces cerevisiae1Xenopus nucleiGenomic regionsSpecific transcriptionTRNA speciesPrecursor RNARNA precursorsTRNA moleculesGene regionSequence analysisGene configurationEnzyme activityGenesMode of expressionFragmentsTranscriptionYeastTRNAAspTwo control regions for eukaryotic tRNA gene transcription.
DeFranco D, Schmidt O, Söll D. Two control regions for eukaryotic tRNA gene transcription. Proceedings Of The National Academy Of Sciences Of The United States Of America 1980, 77: 3365-3368. PMID: 6774336, PMCID: PMC349616, DOI: 10.1073/pnas.77.6.3365.Peer-Reviewed Original ResearchConceptsControl regionTRNALys geneGene transcriptionEukaryotic tRNA gene transcriptionTRNA gene transcriptionInternal control regionIdentical coding sequenceShort leader sequencePrecursor tRNAsTranscription initiationMature tRNALeader sequenceCoding sequencePBR322 sequencesNuclear extractsRecombinant plasmidTranscriptionXenopus oocytesGenesTRNASequenceIN VITRO TRANSCRIPTION OF CLONED EUKARYOTIC tRNA GENES
Schmidt O, Hovemann B, Silverman S, Yamada H, Mao J, Söll D. IN VITRO TRANSCRIPTION OF CLONED EUKARYOTIC tRNA GENES. 1980, 179-188. DOI: 10.1016/b978-0-08-024417-4.50021-4.Peer-Reviewed Original ResearchTRNA genesTRNA precursorsEukaryotic tRNA genesYeast tRNA genesRegulatory DNA regionsRNA polymerase IIICorresponding RNA sequencesXenopus germinal vesicleXenopus nuclear extractsPrecursor tRNAsMature tRNADNA regionsPrimary transcriptTRNA biosynthesisPolymerase IIIGene transcriptionDNA sequencesNuclear extractsRNA sequencesSequence analysisTRNAGerminal vesicleGenesTranscriptionSequence
1979
The nucleotide sequence of a cloned Drosophila arginine tRNA gene and its in vitro transcription in Xenopus germinal vesicle extracts.
Silverman S, Schmidt O, Söll D, Hovemann B. The nucleotide sequence of a cloned Drosophila arginine tRNA gene and its in vitro transcription in Xenopus germinal vesicle extracts. Journal Of Biological Chemistry 1979, 254: 10290-10294. PMID: 114522, DOI: 10.1016/s0021-9258(19)86707-8.Peer-Reviewed Original ResearchConceptsMature tRNAPrecursor RNANucleotide sequenceDrosophila tRNAArg geneGerminal vesicle extractsArginine tRNA geneXenopus germinal vesicleTRNA genesTRNAArg genePrimary transcriptDNA sequencesLeader sequenceVesicle extractsT residuesGenesTranscriptionGerminal vesicleTerminusVitro systemTRNAA sequenceRNASequenceNucleotidesTRNAArgSuppression
Steege D, Söll D. Suppression. Biological Regulation And Development 1979, 433-485. DOI: 10.1007/978-1-4684-3417-0_11.Peer-Reviewed Original ResearchGenetic suppressionType phenotypeFinal gene productsWild-type phenotypePairs of genesInformational suppressorsSuppressor mutationsNonsense suppressionMissense suppressionGene productsMolecular basisFrameshift suppressionGene expressionMutant organismsMolecular mechanismsCell metabolismGenetic selectionGenetic termsMutationsSecondary mutationsTranscriptionMacromolecular componentsPrimary mutationsSuppressorPhenotype