2020
Initiation of Protein Synthesis with Non‐Canonical Amino Acids In Vivo
Tharp J, Ad O, Amikura K, Ward F, Garcia E, Cate J, Schepartz A, Söll D. Initiation of Protein Synthesis with Non‐Canonical Amino Acids In Vivo. Angewandte Chemie 2020, 132: 3146-3150. DOI: 10.1002/ange.201914671.Peer-Reviewed Original ResearchNon-canonical amino acidsDistinct non-canonical amino acidsE. coli translational machineryAmino acidsNon-canonical initiationTRNA fMetTranslational machineryInitiator tRNASynthetic biologyE. coli strainsProtein synthesisDiverse sidechainsColi strainsFMetRemarkable versatilityVivoInitial stepSecond positionGenomeTyrRSTRNARedundant copiesMachineryBiologyPolypeptide
2011
tRNA import into mitochondria: many organisms but not so many mechanisms
Alfonzo J, Randau L, Söll D. tRNA import into mitochondria: many organisms but not so many mechanisms. The FASEB Journal 2011, 25: 311.3-311.3. DOI: 10.1096/fasebj.25.1_supplement.311.3.Peer-Reviewed Original ResearchTRNA importMitochondrial genomeMammalian mitochondriaImport of tRNAsMajority of eukaryotesMitochondrial tRNA mutationsProtein importImport pathwayTRNA genesImport systemAdditional tRNAsTRNA mutationsTRNACellular ATPMitochondriaEukaryotesOrganismsGenomeRat liver mitochondriaLiver mitochondriaImportInnate abilityGenesTrypanosomesCytoplasmAn unusual tRNAThr derived from tRNAHis reassigns in yeast mitochondria the CUN codons to threonine
Su D, Lieberman A, Lang BF, Simonović M, Söll D, Ling J. An unusual tRNAThr derived from tRNAHis reassigns in yeast mitochondria the CUN codons to threonine. Nucleic Acids Research 2011, 39: 4866-4874. PMID: 21321019, PMCID: PMC3113583, DOI: 10.1093/nar/gkr073.Peer-Reviewed Original ResearchConceptsCUN codonsYeast mitochondriaGenetic codeAlloacceptor tRNA gene recruitmentComprehensive phylogenetic analysisStandard genetic codeThreonyl-tRNA synthetaseHistidyl-tRNA synthetaseGene recruitmentEvolutionary originPhylogenetic analysisRecoding eventBiochemical experimentsFirst nucleotideAnticodon loopMST1CodonFirst clear exampleYeastMitochondriaThreonineSynthetaseCandida albicansGenomeClear example
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
2001
A Single Amidotransferase Forms Asparaginyl-tRNA and Glutaminyl-tRNA in Chlamydia trachomatis *
Raczniak G, Becker H, Min B, Söll D. A Single Amidotransferase Forms Asparaginyl-tRNA and Glutaminyl-tRNA in Chlamydia trachomatis *. Journal Of Biological Chemistry 2001, 276: 45862-45867. PMID: 11585842, DOI: 10.1074/jbc.m109494200.Peer-Reviewed Original ResearchConceptsAsn-tRNAGln-tRNAAminoacyl-tRNAOperon-like arrangementAccurate protein synthesisGlutaminyl-tRNA synthetaseGlutamyl-tRNA synthetaseAminoacyl-tRNA synthetasesAsparaginyl-tRNA synthetaseAspartyl-tRNA synthetaseGat genesAsparaginyl-tRNAGenome sequenceMost bacteriaGlutaminyl-tRNAAmidotransferaseProtein synthesisSynthetasesSynthetaseGenesAmide donorEnzymeAspGluGenomeProtein phosphatase 2A: identification in Oryza sativa of the gene encoding the regulatory A subunit
Yu S, Lei H, Chang W, Söll D, Hong G. Protein phosphatase 2A: identification in Oryza sativa of the gene encoding the regulatory A subunit. Plant Molecular Biology 2001, 45: 107-112. PMID: 11247601, DOI: 10.1023/a:1006472722500.Peer-Reviewed Original ResearchConceptsProtein phosphatase 2AAmino acid identitySouthern blot analysisRice genomePP2A proteinPhosphatase 2ABAC libraryRegulatory subunitOryza sativaNicotiana tabacumAcid identityCDNA libraryBp cDNASingle copyGenomic DNAGenesBlot analysisRice proteinRepeat unitsSubunitsProteinArabidopsisIntronsGenomeRPA1
1997
Aminoacyl-tRNA synthesis in Archaea.
Ibba M, Celic I, Curnow A, Kim H, Pelaschier J, Tumbula D, Vothknecht U, Woese C, Söll D. Aminoacyl-tRNA synthesis in Archaea. Nucleic Acids Symposium Series 1997, 305-6. PMID: 9586121.Peer-Reviewed Original ResearchConceptsAminoacyl-tRNA synthesisLysyl-tRNA synthetasesGlutaminyl-tRNA synthetasesArchaeon Haloferax volcaniiArchaeal genomesGlu-tRNAAsn-tRNAHaloferax volcaniiNumber of organismsGln-tRNAGenetic studiesArchaeaAsp-tRNASynthetasesAsparaginylCysteinylEukaryaVolcaniiGenomeGlutaminylOrganismsSequencingBacteriaEnzymeTransamidation
1991
The Human Genome Project: a paradigm for information management in the life sciences
Pearson M, Söll D. The Human Genome Project: a paradigm for information management in the life sciences. The FASEB Journal 1991, 5: 35-39. PMID: 1991581, DOI: 10.1096/fasebj.5.1.1991581.Peer-Reviewed Original Research
1988
Genomic organization of tRNA and aminoacyl-tRNA synthetase genes for two amino acids in Saccharomyces cerevisiae
Kolman C, Snyder M, Söll D. Genomic organization of tRNA and aminoacyl-tRNA synthetase genes for two amino acids in Saccharomyces cerevisiae. Genomics 1988, 3: 201-206. PMID: 3066745, DOI: 10.1016/0888-7543(88)90080-8.Peer-Reviewed Original ResearchConceptsAminoacyl-tRNA synthetase genesContour-clamped homogeneous electric field gel electrophoresisHomogeneous electric field gel electrophoresisSynthetase geneGenomic organizationSmall multigene familyDNA gel blotsAmino acidsField gel electrophoresisGel electrophoresisTRNA genesChromosome assignmentMultigene familyGel blotsGene sequencesS. cerevisiaeChromosomal DNATRNAGenesSaccharomycesAspartic acidElectrophoresisGenomeCerevisiaeFamily
1983
Six Schizosaccharomyces pombe tRNA genes including a gene for a tRNA Lys with an intervening sequence which cannot base-pair with the anticodon
Gamulin V, Mao J, Appel B, Sumner-Smith M, Yamao F, Söll D. Six Schizosaccharomyces pombe tRNA genes including a gene for a tRNA Lys with an intervening sequence which cannot base-pair with the anticodon. Nucleic Acids Research 1983, 11: 8537-8546. PMID: 6561518, PMCID: PMC326605, DOI: 10.1093/nar/11.24.8537.Peer-Reviewed Original ResearchOrganization of ribosomal DNA in yellow lupine (Lupinus luteus) and sequence of the 5.8 S RNA gene
Rafalski J, Wiewiórowski M, Söll D. Organization of ribosomal DNA in yellow lupine (Lupinus luteus) and sequence of the 5.8 S RNA gene. FEBS Letters 1983, 152: 241-246. DOI: 10.1016/0014-5793(83)80388-3.Peer-Reviewed Original Research
1982
The 5S RNA genes of Schizosaccharomyces pombe
Mao J, Appel B, Schaack J, Sharp S, Yamada H, Söll D. The 5S RNA genes of Schizosaccharomyces pombe. Nucleic Acids Research 1982, 10: 487-500. PMID: 6278416, PMCID: PMC326152, DOI: 10.1093/nar/10.2.487.Peer-Reviewed Original Research
1981
The initiator tRNA genes of Drosophila melanogaster: evidence for a tRNA pseudogene
Sharp S, DeFranco D, Silberklang M, Hosbach H, Schmidt T, Kubli E, Gergen J, Wensink P, Söll D. The initiator tRNA genes of Drosophila melanogaster: evidence for a tRNA pseudogene. Nucleic Acids Research 1981, 9: 5867-5882. PMID: 6273811, PMCID: PMC327570, DOI: 10.1093/nar/9.22.5867.Peer-Reviewed Original ResearchConceptsInitiator tRNA geneTRNA genesDrosophila genomeDrosophila melanogasterTRNA gene familyRNA polymerase IIIDrosophila melanogaster DNAKb DNA fragmentTRNA pseudogenesRepetitive DNAGene familyPolymerase IIISingle copyGenomic DNADNA fragmentsPseudogenesRepeat segmentsGenesHybridization analysisFourth cloneMelanogasterSitu hybridizationGenomeDNAFragments
1975
Isolation and partial characterization of three Escherichia coli mutants with altered transfer ribonucleic acid methylases
Marinus M, Morris N, Söll D, Kwong T. Isolation and partial characterization of three Escherichia coli mutants with altered transfer ribonucleic acid methylases. Journal Of Bacteriology 1975, 122: 257-265. PMID: 1091626, PMCID: PMC235665, DOI: 10.1128/jb.122.1.257-265.1975.Peer-Reviewed Original ResearchConceptsE. coli genomeEscherichia coli mutantsWild-type cellsEscherichia coli KAbility of RNAColi genomeColi mutantsAmber mutationGenetic lociMutagenized cellsColi KMutant strainMutantsLambda phageTRNAS-adenosylmethioninePartial characterizationGenomeCellsCrude enzymeBiosynthesisMethylasesMethylaseLociRNA