{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,22]],"date-time":"2026-09-22T05:10:50Z","timestamp":1790053850871,"version":"4.0.1"},"reference-count":60,"publisher":"Frontiers Media SA","license":[{"start":{"date-parts":[[2019,2,12]],"date-time":"2019-02-12T00:00:00Z","timestamp":1549929600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001691","name":"Japan Society for the Promotion of Science","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100001691","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["frontiersin.org"],"crossmark-restriction":true},"short-container-title":["Front. Genet."],"DOI":"10.3389\/fgene.2019.00103","type":"journal-article","created":{"date-parts":[[2019,2,12]],"date-time":"2019-02-12T04:47:51Z","timestamp":1549946871000},"update-policy":"https:\/\/doi.org\/10.3389\/crossmark-policy","source":"Crossref","is-referenced-by-count":24,"title":["Recent Insights Into the Structure, Function, and Evolution of the RNA-Splicing Endonucleases"],"prefix":"10.3389","volume":"10","author":[{"given":"Akira","family":"Hirata","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1965","published-online":{"date-parts":[[2019,2,12]]},"reference":[{"key":"B1","doi-asserted-by":"publisher","first-page":"12685","DOI":"10.1074\/jbc.273.21.12685","article-title":"tRNA splicing.","volume":"273","author":"Abelson","year":"1998","journal-title":"J. Biol. Chem."},{"key":"B2","doi-asserted-by":"publisher","first-page":"1404","DOI":"10.1126\/science.1542788","article-title":"Participation of the intron in the reaction catalyzed by the Xenopus tRNA splicing endonuclease.","volume":"255","author":"Baldi","year":"1992","journal-title":"Science"},{"key":"B3","doi-asserted-by":"publisher","first-page":"325","DOI":"10.1016\/j.ejmg.2013.03.009","article-title":"Pontocerebellar hypoplasia type 2 and TSEN2: review of the literature and two novel mutations.","volume":"56","author":"Bierhals","year":"2013","journal-title":"Eur. J. Med. Genet."},{"key":"B4","doi-asserted-by":"publisher","first-page":"228","DOI":"10.1016\/j.ajhg.2016.08.009","article-title":"Autosomal-recessive mutations in the tRNA splicing endonuclease subunit TSEN15 cause pontocerebellar hypoplasia and progressive microcephaly.","volume":"99","author":"Breuss","year":"2016","journal-title":"Am. J. Hum. Genet."},{"key":"B5","doi-asserted-by":"publisher","first-page":"1113","DOI":"10.1038\/ng.204","article-title":"tRNA splicing endonuclease mutations cause pontocerebellar hypoplasia.","volume":"40","author":"Budde","year":"2008","journal-title":"Nat. Genet."},{"key":"B6","doi-asserted-by":"publisher","first-page":"4697","DOI":"10.1002\/j.1460-2075.1993.tb06158.x","article-title":"In vitro genetic analysis of the structural features of the pre-tRNA required for determination of the 3\u2019 splice site in the intron excision reaction.","volume":"12","author":"Bufardeci","year":"1993","journal-title":"EMBO J."},{"key":"B7","doi-asserted-by":"publisher","first-page":"1176","DOI":"10.1007\/s00018-008-7393-y","article-title":"RNA-splicing endonuclease structure and function.","volume":"65","author":"Calvin","year":"2008","journal-title":"Cell. Mol. Life Sci."},{"key":"B8","doi-asserted-by":"publisher","DOI":"10.1186\/gb-2011-12-4-r38","article-title":"Discovery of permuted and recently split transfer RNAs in Archaea.","volume":"12","author":"Chan","year":"2011","journal-title":"Genome Biol."},{"key":"B9","doi-asserted-by":"publisher","first-page":"1290","DOI":"10.1073\/pnas.1018307108","article-title":"Archaeal 3\u2019-phosphate RNA splicing ligase characterization identifies the missing component in tRNA maturation.","volume":"108","author":"Englert","year":"2011","journal-title":"Proc. Natl. Acad. Sci. U.S.A."},{"key":"B10","doi-asserted-by":"publisher","DOI":"10.3389\/fgene.2014.00142","article-title":"tRNA gene diversity in the three domains of life.","volume":"5","author":"Fujishima","year":"2014","journal-title":"Front. Genet."},{"key":"B11","doi-asserted-by":"publisher","first-page":"2683","DOI":"10.1073\/pnas.0808246106","article-title":"Tri-split tRNA is a transfer RNA made from 3 transcripts that provides insight into the evolution of fragmented tRNAs in archaea.","volume":"106","author":"Fujishima","year":"2009","journal-title":"Proc. Natl. Acad. Sci. U.S.A."},{"key":"B12","doi-asserted-by":"publisher","first-page":"9695","DOI":"10.1093\/nar\/gkr692","article-title":"A novel three-unit tRNA splicing endonuclease found in ultrasmall Archaea possesses broad substrate specificity.","volume":"39","author":"Fujishima","year":"2011","journal-title":"Nucleic Acids Res."},{"key":"B13","doi-asserted-by":"publisher","first-page":"111","DOI":"10.1016\/j.tig.2004.12.007","article-title":"The natural history of group I introns.","volume":"21","author":"Haugen","year":"2005","journal-title":"Trends Genet."},{"key":"B14","doi-asserted-by":"publisher","first-page":"10554","DOI":"10.1093\/nar\/gks826","article-title":"X-ray structure of the fourth type of archaeal tRNA splicing endonuclease: insights into the evolution of a novel three-unit composition and a unique loop involved in broad substrate specificity.","volume":"40","author":"Hirata","year":"2012","journal-title":"Nucleic Acids Res."},{"key":"B15","doi-asserted-by":"publisher","first-page":"9376","DOI":"10.1093\/nar\/gkr615","article-title":"Cleavage of intron from the standard or non-standard position of the precursor tRNA by the splicing endonuclease of Aeropyrum pernix, a hyper-thermophilic Crenarchaeon, involves a novel RNA recognition site in the Crenarchaea specific loop.","volume":"39","author":"Hirata","year":"2011","journal-title":"Nucleic Acids Res."},{"key":"B16","doi-asserted-by":"publisher","first-page":"1958","DOI":"10.1093\/nar\/gky003","article-title":"The RNA-splicing endonuclease from the euryarchaeaon Methanopyrus kandleri is a heterotetramer with constrained substrate specificity.","volume":"46","author":"Kaneta","year":"2018","journal-title":"Nucleic Acids Res."},{"key":"B17","doi-asserted-by":"publisher","first-page":"8339","DOI":"10.1128\/JB.00713-07","article-title":"Structural and mutational analysis of tRNA intron-splicing endonuclease from Thermoplasma acidophilum DSM 1728: catalytic mechanism of tRNA intron-splicing endonucleases.","volume":"189","author":"Kim","year":"2007","journal-title":"J. Bacteriol."},{"key":"B18","doi-asserted-by":"publisher","first-page":"693","DOI":"10.1016\/S0092-8674(88)80014-X","article-title":"Novel splicing mechanism for the ribosomal RNA intron in the archaebacterium Desulfurococcus mobilis.","volume":"54","author":"Kjems","year":"1988","journal-title":"Cell"},{"key":"B19","doi-asserted-by":"publisher","first-page":"439","DOI":"10.1073\/pnas.88.2.439","article-title":"Ribosomal RNA introns in archaea and evidence for RNA conformational changes associated with splicing.","volume":"88","author":"Kjems","year":"1991","journal-title":"Proc. Natl. Acad. Sci. U.S.A."},{"key":"B20","doi-asserted-by":"publisher","first-page":"839","DOI":"10.1016\/S0092-8674(00)80269-X","article-title":"Properties of H. volcanii tRNA intron endonuclease reveal a relationship between the archaeal and eucaryal tRNA intron processing systems.","volume":"89","author":"Kleman-Leyer","year":"1997","journal-title":"Cell"},{"key":"B21","doi-asserted-by":"publisher","first-page":"639","DOI":"10.1006\/jmbi.2000.3941","article-title":"Crystal structure of a dimeric archaeal splicing endonuclease.","volume":"302","author":"Li","year":"2000","journal-title":"J. Mol. Biol."},{"key":"B22","doi-asserted-by":"publisher","first-page":"279","DOI":"10.1126\/science.280.5361.279","article-title":"Crystal structure and evolution of a transfer RNA splicing enzyme.","volume":"280","author":"Li","year":"1998","journal-title":"Science"},{"key":"B23","doi-asserted-by":"publisher","first-page":"326","DOI":"10.1016\/S0968-0004(97)01113-4","article-title":"Archaeal introns: splicing, intercellular mobility and evolution.","volume":"22","author":"Lykke-Andersen","year":"","journal-title":"Trends Biochem. Sci."},{"key":"B24","doi-asserted-by":"publisher","first-page":"3272","DOI":"10.1093\/emboj\/16.11.3272","article-title":"Mapping metal ions at the catalytic centres of two intron-encoded endonucleases.","volume":"16","author":"Lykke-Andersen","year":"","journal-title":"EMBO J."},{"key":"B25","doi-asserted-by":"publisher","first-page":"6290","DOI":"10.1093\/emboj\/16.20.6290","article-title":"RNA-protein interactions of an archaeal homotetrameric splicing endoribonuclease with an exceptional evolutionary history.","volume":"16","author":"Lykke-Andersen","year":"1997","journal-title":"EMBO J."},{"key":"B26","first-page":"286","article-title":"TSEN54 gene-related pontocerebellar hypoplasia type 2 presenting with exaggerated startle response: report of two cases in a family.","volume":"57","author":"Mara\u015f-Gen\u00e7","year":"2015","journal-title":"Turk. J. Pediatr."},{"key":"B27","doi-asserted-by":"publisher","first-page":"1516","DOI":"10.1261\/rna.5132503","article-title":"Identification of BHB splicing motifs in intron-containing tRNAs from 18 archaea: evolutionary implications.","volume":"9","author":"Marck","year":"2003","journal-title":"RNA"},{"key":"B28","doi-asserted-by":"publisher","first-page":"5793","DOI":"10.1093\/nar\/gkp537","article-title":"Crystal structure and assembly of the functional Nanoarchaeum equitans tRNA splicing endonuclease.","volume":"37","author":"Mitchell","year":"2009","journal-title":"Nucleic Acids Res."},{"key":"B29","doi-asserted-by":"publisher","first-page":"143","DOI":"10.1093\/brain\/awq287","article-title":"Clinical, neuroradiological and genetic findings in pontocerebellar hypoplasia.","volume":"134","author":"Namavar","year":"","journal-title":"Brain"},{"key":"B30","doi-asserted-by":"publisher","first-page":"724","DOI":"10.1038\/ejhg.2011.8","article-title":"TSEN54 mutations cause pontocerebellar hypoplasia type 5.","volume":"19","author":"Namavar","year":"","journal-title":"Eur. J. Hum. Genet."},{"key":"B31","doi-asserted-by":"publisher","first-page":"92","DOI":"10.1016\/j.jmb.2010.10.050","article-title":"A conserved lysine residue in the crenarchaea-specific loop is importantfor the crenarchaeal splicing endonuclease activity.","volume":"405","author":"Okuda","year":"2011","journal-title":"J. Mol. Biol."},{"key":"B32","doi-asserted-by":"publisher","first-page":"315","DOI":"10.1016\/0167-4781(92)90168-Y","article-title":"Transfer RNA genes from the hyperthermophilic Archaeon, Methanopyrus kandleri.","volume":"1132","author":"Palmer","year":"1992","journal-title":"Biochim. Biophys. Acta"},{"key":"B33","doi-asserted-by":"publisher","first-page":"311","DOI":"10.1016\/S0092-8674(04)00342-3","article-title":"Identification of a human endonuclease complex reveals a link between tRNA splicing and pre-mRNA 3\u2019 end formation.","volume":"117","author":"Paushkin","year":"2004","journal-title":"Cell"},{"key":"B34","doi-asserted-by":"crossref","first-page":"2978","DOI":"10.1016\/S0021-9258(17)35882-9","article-title":"Saccharomyces cerevisiae tRNA ligase. Purification of the protein and isolation of the structural gene.","volume":"261","author":"Phizicky","year":"1986","journal-title":"J. Biol. Chem."},{"key":"B35","doi-asserted-by":"publisher","first-page":"760","DOI":"10.1126\/science.1197847","article-title":"HSPC117 is the essential subunit of a human tRNA splicing ligase complex.","volume":"331","author":"Popow","year":"2011","journal-title":"Science"},{"key":"B36","doi-asserted-by":"publisher","first-page":"1045","DOI":"10.1021\/cr960427h","article-title":"Ribonuclease A.","volume":"98","author":"Raines","year":"1998","journal-title":"Chem. Rev."},{"key":"B37","doi-asserted-by":"publisher","first-page":"537","DOI":"10.1038\/nature03233","article-title":"Nanoarchaeum equitans creates functional tRNAs from separate genes for their 5\u2019- and 3\u2019-halves.","volume":"433","author":"Randau","year":"2005","journal-title":"Nature"},{"key":"B38","doi-asserted-by":"crossref","first-page":"18180","DOI":"10.1016\/S0021-9258(17)44735-1","article-title":"Yeast tRNA-splicing endonuclease is a heterotrimeric enzyme.","volume":"265","author":"Rauhut","year":"1990","journal-title":"J. Biol. Chem."},{"key":"B39","doi-asserted-by":"publisher","first-page":"719","DOI":"10.1016\/0092-8674(88)90230-9","article-title":"Substrate recognition and splice site determination in yeast tRNA splicing.","volume":"55","author":"Reyes","year":"1988","journal-title":"Cell"},{"key":"B40","doi-asserted-by":"publisher","DOI":"10.3389\/fgene.2014.00063","article-title":"Circularly permuted tRNA genes: their expression and implications for their physiological relevance and development.","volume":"5","author":"Soma","year":"2014","journal-title":"Front. Genet."},{"key":"B41","doi-asserted-by":"publisher","first-page":"450","DOI":"10.1126\/science.1145718","article-title":"Permuted tRNA genes expressed via a circular RNA intermediate in Cyanidioschyzon merolae.","volume":"318","author":"Soma","year":"2007","journal-title":"Science"},{"key":"B42","doi-asserted-by":"publisher","DOI":"10.1038\/srep02321","article-title":"Identification of highly-disrupted tRNA genes in nuclear genome of the red alga, Cyanidioschyzon merolae 10D.","volume":"3","author":"Soma","year":"2013","journal-title":"Sci. Rep."},{"key":"B43","doi-asserted-by":"publisher","first-page":"155","DOI":"10.1016\/j.jmb.2006.11.024","article-title":"Three-dimensional structure determined for a subunit of human tRNA splicing endonuclease (Sen15) reveals a novel dimeric fold.","volume":"366","author":"Song","year":"2007","journal-title":"J. Mol. Biol."},{"key":"B44","doi-asserted-by":"publisher","first-page":"2709","DOI":"10.1093\/molbev\/msn216","article-title":"Comprehensive analysis of archaeal tRNA genes reveals rapid increase of tRNA introns in the order thermoproteales.","volume":"25","author":"Sugahara","year":"2008","journal-title":"Mol. Biol. Evol."},{"key":"B45","doi-asserted-by":"publisher","first-page":"30253","DOI":"10.1074\/jbc.C111.274597","article-title":"RtcB, a novel RNA ligase, can catalyze tRNA splicing and HAC1 mRNA splicing in vivo.","volume":"286","author":"Tanaka","year":"2011","journal-title":"J. Biol. Chem."},{"key":"B46","doi-asserted-by":"crossref","first-page":"17951","DOI":"10.1016\/S0021-9258(19)81308-X","article-title":"A tRNA(Trp) intron endonuclease from Halobacterium volcanii. Unique substrate recognition properties.","volume":"263","author":"Thompson","year":"1988","journal-title":"J. Biol. Chem."},{"key":"B47","doi-asserted-by":"publisher","first-page":"15418","DOI":"10.1073\/pnas.0506750102","article-title":"Coevolution of tRNA intron motifs and tRNA endonuclease architecture in Archaea.","volume":"102","author":"Tocchini-Valentini","year":"","journal-title":"Proc. Natl. Acad. Sci. U.S.A."},{"key":"B48","doi-asserted-by":"publisher","first-page":"8933","DOI":"10.1073\/pnas.0502350102","article-title":"Structure, function, and evolution of the tRNA endonucleases of Archaea: an example of subfunctionalization.","volume":"102","author":"Tocchini-Valentini","year":"","journal-title":"Proc. Natl. Acad. Sci. U.S.A."},{"key":"B49","doi-asserted-by":"publisher","first-page":"20246","DOI":"10.1073\/pnas.0911658106","article-title":"Processing of multiple-intron-containing pre-tRNA.","volume":"106","author":"Tocchini-Valentini","year":"2009","journal-title":"Proc. Natl. Acad. Sci. U.S.A."},{"key":"B50","doi-asserted-by":"publisher","first-page":"849","DOI":"10.1016\/S0092-8674(00)80270-6","article-title":"The yeast tRNA splicing endonuclease: a tetrameric enzyme with two active site subunits homologous to the archaeal tRNA endonucleases.","volume":"89","author":"Trotta","year":"1997","journal-title":"Cell"},{"key":"B51","doi-asserted-by":"publisher","first-page":"375","DOI":"10.1038\/nature04741","article-title":"Cleavage of pre-tRNAs by the splicing endonuclease requires a composite active site.","volume":"441","author":"Trotta","year":"2006","journal-title":"Nature"},{"key":"B52","doi-asserted-by":"publisher","first-page":"16021","DOI":"10.1074\/jbc.M114.634592","article-title":"The tRNA splicing endonuclease complex cleaves the mitochondria-localized CBP1 mRNA.","volume":"290","author":"Tsuboi","year":"2015","journal-title":"J. Biol. Chem."},{"key":"B53","doi-asserted-by":"crossref","first-page":"3171","DOI":"10.1016\/S0021-9258(18)69050-7","article-title":"Structure and function of the yeast tRNA ligase gene.","volume":"263","author":"Westaway","year":"1988","journal-title":"J. Biol. Chem."},{"key":"B54","doi-asserted-by":"publisher","first-page":"1566","DOI":"10.1126\/science.2125747","article-title":"Bacterial origin of a chloroplast intron: conserved self-splicing group I introns in cyanobacteria.","volume":"250","author":"Xu","year":"1990","journal-title":"Science"},{"key":"B55","doi-asserted-by":"publisher","first-page":"906","DOI":"10.1126\/science.1126629","article-title":"RNA recognition and cleavage by a splicing endonuclease.","volume":"312","author":"Xue","year":"2006","journal-title":"Science"},{"key":"B56","doi-asserted-by":"publisher","DOI":"10.3389\/fgene.2014.00213","article-title":"Handling tRNA introns, archaeal way and eukaryotic way.","volume":"5","author":"Yoshihisa","year":"2014","journal-title":"Front. Genet."},{"key":"B57","doi-asserted-by":"publisher","first-page":"285","DOI":"10.1111\/j.1365-2443.2007.01056.x","article-title":"Cytoplasmic splicing of tRNA in Saccharomyces cerevisiae.","volume":"12","author":"Yoshihisa","year":"2007","journal-title":"Genes Cells"},{"key":"B58","doi-asserted-by":"publisher","first-page":"3266","DOI":"10.1091\/mbc.e02-11-0757","article-title":"Possibility of cytoplasmic pre-tRNA splicing: the yeast tRNA splicing endonuclease mainly localizes on the mitochondria.","volume":"14","author":"Yoshihisa","year":"2003","journal-title":"Mol. Biol. Cell"},{"key":"B59","doi-asserted-by":"publisher","first-page":"1024","DOI":"10.1016\/j.bbrc.2006.06.011","article-title":"Archaeal pre-mRNA splicing: a connection to hetero-oligomeric splicing endonuclease.","volume":"346","author":"Yoshinari","year":"2006","journal-title":"Biochem. Biophys. Res. Commun."},{"key":"B60","doi-asserted-by":"publisher","first-page":"4787","DOI":"10.1093\/nar\/gkp506","article-title":"Functional importance of crenarchaea-specific extra-loop revealed by an X-ray structure of a heterotetrameric crenarchaeal splicing endonuclease.","volume":"37","author":"Yoshinari","year":"2009","journal-title":"Nucleic Acids Res."}],"container-title":["Frontiers in Genetics"],"original-title":[],"link":[{"URL":"https:\/\/www.frontiersin.org\/article\/10.3389\/fgene.2019.00103\/full","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2022,9,11]],"date-time":"2022-09-11T19:07:08Z","timestamp":1662923228000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.frontiersin.org\/article\/10.3389\/fgene.2019.00103\/full"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2019,2,12]]},"references-count":60,"alternative-id":["10.3389\/fgene.2019.00103"],"URL":"https:\/\/doi.org\/10.3389\/fgene.2019.00103","relation":{},"ISSN":["1664-8021"],"issn-type":[{"value":"1664-8021","type":"electronic"}],"subject":[],"published":{"date-parts":[[2019,2,12]]},"article-number":"103"}}