2006
Aminoacyl‐tRNAs: Deciphering and Defining the Genetic Message
Ambrogelly A, Salazar J, Sheppard K, Polycarpo C, Oshikane H, Nakamura Y, Fukai S, Nureki O, Söll D. Aminoacyl‐tRNAs: Deciphering and Defining the Genetic Message. 2006, 207-215. DOI: 10.1002/9780470750865.ch18.Peer-Reviewed Original Research
2004
Cys-tRNACys formation and cysteine biosynthesis in methanogenic archaea: two faces of the same problem?
Ambrogelly A, Kamtekar S, Sauerwald A, Ruan B, Tumbula-Hansen D, Kennedy D, Ahel I, Söll D. Cys-tRNACys formation and cysteine biosynthesis in methanogenic archaea: two faces of the same problem? Cellular And Molecular Life Sciences 2004, 61: 2437-2445. PMID: 15526152, DOI: 10.1007/s00018-004-4194-9.Peer-Reviewed Original ResearchConceptsMethanogenic archaeaCysteine biosynthesisCellular translation machineryAminoacyl-tRNA synthesisCanonical cysteinyl-tRNA synthetaseAminoacyl-tRNA synthetasesCysteinyl-tRNA synthetaseRecognizable genesTranslation machineryGenome sequenceArchaeaBiosynthesisEssential componentSynthetasesTRNARibosomesGenesMachineryOrganismsSynthetasePossible linkSequenceFormation
2001
Genomics and the evolution of aminoacyl-tRNA synthesis.
Ruan B, Ahel I, Ambrogelly A, Becker H, Bunjun S, Feng L, Tumbula-Hansen D, Ibba M, Korencic D, Kobayashi H, Jacquin-Becker C, Mejlhede N, Min B, Raczniak G, Rinehart J, Stathopoulos C, Li T, Söll D. Genomics and the evolution of aminoacyl-tRNA synthesis. Acta Biochimica Polonica 2001, 48: 313-21. PMID: 11732603, DOI: 10.18388/abp.2001_3917.Peer-Reviewed Original ResearchConceptsAminoacyl-tRNA synthesisAminoacyl-tRNA synthetasesTransfer RNAsAmino acidsMessenger RNAGenetic informationContemporary aminoacyl-tRNA synthetasesDirect protein synthesisNon-canonical routesEvolutionary diversityEvolutionary divergenceCys-tRNANascent polypeptidesRibosome movesAsn-tRNAGln-tRNAWhole genomeAppropriate amino acidsTRNA anticodonSubstrate specificityLys-tRNATrinucleotide codonsNext codonUnexpected levelProtein synthesisThe renaissance of aminoacyl‐tRNA synthesis
Ibba M, Söll D. The renaissance of aminoacyl‐tRNA synthesis. EMBO Reports 2001, 2: 382-387. PMID: 11375928, PMCID: PMC1083889, DOI: 10.1093/embo-reports/kve095.Peer-Reviewed Original ResearchConceptsAminoacyl-tRNA synthesisProtein synthesisRole of tRNAEvolutionary diversityStructural biologyMolecular biologistsUnexpected arrayMolecular biologyNew enzymeDecades of studyAmino acidsEssential processTRNABiologyComplete pictureGenomicsAdaptorBiologistsDiversityEnzymePathwayHigh degreeSynthesisNumerous milestonesGenomics-based identification of targets in pathogenic bacteria for potential therapeutic and diagnostic use
Raczniak G, Ibba M, Söll D. Genomics-based identification of targets in pathogenic bacteria for potential therapeutic and diagnostic use. Toxicology 2001, 160: 181-189. PMID: 11246138, DOI: 10.1016/s0300-483x(00)00454-6.Peer-Reviewed Original ResearchConceptsComplete microbial genome sequencesMicrobial genome sequencesFundamental biological processesPathogen-specific pathwaysAminoacyl-tRNA synthesisGenome sequenceBiochemical approachesMammalian hostsIdentification of targetsBiological processesNumber of pathogensProtein synthesisPharmaceutical exploitationSynthesis pathwayCertain pathwaysNovel targetPathogenic bacteriaEnzyme presentPathwayDiagnostic targetsCell viabilityKey processesGenomicsRecent advancesTarget
2000
The Adaptor hypothesis revisited
Ibba M, Becker H, Stathopoulos C, Tumbula D, Söll D, Ibba M, Becker H, Stathopoulos C, Tumbula D, Söll D. The Adaptor hypothesis revisited. Trends In Biochemical Sciences 2000, 25: 311-316. PMID: 10871880, DOI: 10.1016/s0968-0004(00)01600-5.Peer-Reviewed Original ResearchAMINOACYL-tRNA SYNTHESIS
Ibba M, Söll D. AMINOACYL-tRNA SYNTHESIS. Annual Review Of Biochemistry 2000, 69: 617-650. PMID: 10966471, DOI: 10.1146/annurev.biochem.69.1.617.Peer-Reviewed Original ResearchConceptsAminoacyl-tRNA synthesisAmino acidsAminoacyl-tRNA synthetaseEvolutionary facetsWhole-genome sequencingCorresponding tRNAsGenetic codeGenome sequencingAminoacyl-tRNACorresponding anticodonTRNACurrent knowledgeStructural dataRecent studiesAnticodonDetailed pictureAcidSequencingSynthetaseEditingProofreadingSynthesisTranslationDirect attachment
1999
Cysteinyl‐tRNA formation: the last puzzle of aminoacyl‐tRNA synthesis
Li T, Graham D, Stathopoulos C, Haney P, Kim H, Vothknecht U, Kitabatake M, Hong K, Eggertsson G, Curnow A, Lin W, Celic I, Whitman W, Söll D. Cysteinyl‐tRNA formation: the last puzzle of aminoacyl‐tRNA synthesis. FEBS Letters 1999, 462: 302-306. PMID: 10622715, DOI: 10.1016/s0014-5793(99)01550-1.Peer-Reviewed Original ResearchConceptsLateral gene transferAminoacyl-tRNA synthesisCysteinyl-tRNA synthetaseEscherichia coli cysteinyl-tRNA synthetaseMolecular phylogenyPyrococcus sppMethanococcus jannaschiiMethanococcus maripaludisM. maripaludisMethanogenic archaeaMethanosarcina sppGene transferCysRSMethanosarcina barkeriGenesSpecific relativeLast puzzleSppOrthologsArchaeaPhylogenyJannaschiiMutantsLineagesOrganismsArchaeal Aminoacyl-tRNA Synthesis: Diversity Replaces Dogma
Tumbula D, Vothknecht U, Kim H, Ibba M, Min B, Li T, Pelaschier J, Stathopoulos C, Becker H, Söll D. Archaeal Aminoacyl-tRNA Synthesis: Diversity Replaces Dogma. Genetics 1999, 152: 1269-1276. PMID: 10430557, PMCID: PMC1460689, DOI: 10.1093/genetics/152.4.1269.Peer-Reviewed Original ResearchConceptsAminoacyl-tRNA synthesisGene transfer eventsPhenylalanyl-tRNA synthetasesLysyl-tRNA synthetaseTransamidation pathwayExtant organismsMethanococcus jannaschiiAsparaginyl-tRNAProtein biosynthesisGenetic codeGene expressionGenome sequencingAminoacyl-tRNAArchaeaMethanobacterium thermoautotrophicumMolecular biologyUnexpected levelNovel pathwayTransfer eventsFaithful translationPathwayJannaschiiSynthetasesBiosynthesisOrganisms
1997
Aminoacyl-tRNA synthesis: divergent routes to a common goal
Ibba M, Curnow A, Söll D. Aminoacyl-tRNA synthesis: divergent routes to a common goal. Trends In Biochemical Sciences 1997, 22: 39-42. PMID: 9048478, DOI: 10.1016/s0968-0004(96)20033-7.Peer-Reviewed Original ResearchAminoacyl-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