{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,26]],"date-time":"2026-02-26T20:05:05Z","timestamp":1772136305041,"version":"3.50.1"},"reference-count":77,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2024,2,9]],"date-time":"2024-02-09T00:00:00Z","timestamp":1707436800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0"},{"start":{"date-parts":[[2024,2,9]],"date-time":"2024-02-09T00:00:00Z","timestamp":1707436800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Sci Rep"],"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>\n                    Fish mitochondrial genome have been largely studied worldwide for evolutionary and other genetic purposes and the structure and gene organization are commonly conservative. However, several studies have demonstrated that this scenario may present variations in some taxa, showing differentiation on the gene rearrangement. In this study, the complete mitogenome of terrestrial fish\n                    <jats:italic>Boleophthalmus dussumier<\/jats:italic>\n                    i was generated and compared with other species of the Exudercidae fishes. The newly complete mitogenome generated is circular and 16,685\u00a0bp of length, and it contained 13 protein-coding genes (PCGs), two ribosomal RNA (rRNAs), 22 transfer RNA genes (tRNAs), and one control region (CR), with high conservative structure, like other Mudskippers. Most of the PCG showed similar codon usage bias. The gene length was found to be different specially for the CR,\n                    <jats:italic>12S rRNA<\/jats:italic>\n                    gene and\n                    <jats:italic>ND5<\/jats:italic>\n                    gene in some taxon. All the\n                    <jats:italic>Boleophthalmus<\/jats:italic>\n                    species showed a gene duplication in the CR, except for\n                    <jats:italic>B. dussumieri<\/jats:italic>\n                    , and they presented a long intergenic spacer specially on the\n                    <jats:italic>tRNA-Pro<\/jats:italic>\n                    \/ OH Tandem duplication\/random loss (TDRL) and dimer-mitogenome and nonrandom loss (DMNL) are suitable to explain the mitogenome rearrangement observed in this study. The phylogenetic analysis well supported the monophyly of all mudskipper species and the analysis positioned the\n                    <jats:italic>Periophthalmus<\/jats:italic>\n                    clade as the most basal of the terrestrial fishes. This finding provides basis and brings insights for gene variation, gene rearrangements and replications showing evidence for variety of mitochondrial structure diversity within mudskippers.\n                  <\/jats:p>","DOI":"10.1038\/s41598-024-52979-4","type":"journal-article","created":{"date-parts":[[2024,2,9]],"date-time":"2024-02-09T10:02:45Z","timestamp":1707472965000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":12,"title":["Comparative mitochondrial genome brings insights to slight variation in gene proportion and large intergenic spacer and phylogenetic relationship of mudskipper species"],"prefix":"10.1038","volume":"14","author":[{"given":"Valdemiro","family":"Muhala","sequence":"first","affiliation":[]},{"given":"Auryc\u00e9ia","family":"Guimar\u00e3es-Costa","sequence":"additional","affiliation":[]},{"given":"Adam Rick","family":"Bessa-Silva","sequence":"additional","affiliation":[]},{"given":"Luan Pinto","family":"Rabelo","sequence":"additional","affiliation":[]},{"given":"Jeferson","family":"Carneiro","sequence":"additional","affiliation":[]},{"given":"Isadola Eus\u00e9bio","family":"Macate","sequence":"additional","affiliation":[]},{"given":"Luciana","family":"Watanabe","sequence":"additional","affiliation":[]},{"given":"Oscar David","family":"Balc\u00e1zar","sequence":"additional","affiliation":[]},{"given":"Grazielle Evangelista","family":"Gomes","sequence":"additional","affiliation":[]},{"given":"Marcelo","family":"Vallinoto","sequence":"additional","affiliation":[]},{"given":"Iracilda","family":"Sampaio","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2024,2,9]]},"reference":[{"issue":"1","key":"52979_CR1","doi-asserted-by":"publisher","first-page":"141","DOI":"10.1242\/jeb.50.1.141","volume":"50","author":"MS Gordon","year":"1969","unstructured":"Gordon, M. S., Boetius, I., Evans, D. H., Mccarthy, R. O. S. E. M. A. R. Y. & Oglesby, L. C. Aspects of the physiology of terrestrial life in amphibious fishes: I. The mudskipper, Periophthalmus sobrinus. J. Exp. Biol. 50(1), 141\u2013149 (1969).","journal-title":"J. Exp. Biol."},{"issue":"5","key":"52979_CR2","doi-asserted-by":"publisher","first-page":"783","DOI":"10.1086\/423745","volume":"77","author":"DJ Randall","year":"2004","unstructured":"Randall, D. J., Ip, Y. K., Chew, S. F. & Wilson, J. M. Air breathing and ammonia excretion in the giant mudskipper, Periophthalmodon schlosseri. Physiol. Biochem. Zool. 77(5), 783\u2013788 (2004).","journal-title":"Physiol. Biochem. Zool."},{"issue":"1","key":"52979_CR3","doi-asserted-by":"publisher","first-page":"91","DOI":"10.1007\/s10750-017-3120-8","volume":"795","author":"G Polgar","year":"2017","unstructured":"Polgar, G. et al. Ecomorphological adaptation in three mudskippers (Teleostei: Gobioidei: Gobiidae) from the Persian Gulf and the Gulf of Oman. Hydrobiologia 795(1), 91\u2013111 (2017).","journal-title":"Hydrobiologia"},{"key":"52979_CR4","doi-asserted-by":"publisher","first-page":"107416","DOI":"10.1016\/j.ympev.2022.107416","volume":"169","author":"SJ Steppan","year":"2022","unstructured":"Steppan, S. J. et al. Phylogenetics and the evolution of terrestriality in mudskippers (Gobiidae: Oxudercinae). Mol. Phylogenet. Evol. 169, 107416. https:\/\/doi.org\/10.1016\/j.ympev.2022.107416 (2022).","journal-title":"Mol. Phylogenet. Evol."},{"issue":"4","key":"52979_CR5","doi-asserted-by":"publisher","first-page":"1337","DOI":"10.1080\/23802359.2021.1909433","volume":"6","author":"C Pan","year":"2021","unstructured":"Pan, C. et al. The complete mitochondrial genome of the mudskipper, Boleophthalmus pectinirostris (Gobiiformes, Oxudercidae) from Beibu Bay. Mitochondr. DNA Part B 6(4), 1337\u20131338 (2021).","journal-title":"Mitochondr. DNA Part B"},{"issue":"5","key":"52979_CR6","doi-asserted-by":"publisher","first-page":"3381","DOI":"10.3109\/19401736.2015.1018230","volume":"27","author":"J Zhang","year":"2016","unstructured":"Zhang, J., Takita, T., Muchtar, A., Chen, C. & Ishimatsu, A. Mitochondrial genome of Boleophthalmus sp. nov. (Osteichthyes: Gobiidae). Mitochondr. DNA Part A 27(5), 3381\u20133382 (2016).","journal-title":"Mitochondr. DNA Part A"},{"key":"52979_CR7","doi-asserted-by":"publisher","first-page":"230","DOI":"10.3109\/19401736.2014.880903","volume":"27","author":"S Zhang","year":"2016","unstructured":"Zhang, S., Cui, J., Xu, R., Xu, P. & Sun, J. The complete mitochondrial genome of Paracheirodon axelrodi (Characiformes: Characidae: Paracheirodon). Mitochondr. DNA 27, 230\u2013231. https:\/\/doi.org\/10.3109\/19401736.2014.880903 (2016).","journal-title":"Mitochondr. DNA"},{"issue":"1","key":"52979_CR8","doi-asserted-by":"publisher","first-page":"62","DOI":"10.3109\/19401736.2013.873901","volume":"27","author":"YT Zhang","year":"2016","unstructured":"Zhang, Y. T. et al. Complete mitochondrial genome of the mudskipper Boleophthalmus boddarti (Perciformes, Gobiidae). Mitochondr. DNA Part A 27(1), 62\u201364 (2016).","journal-title":"Mitochondr. DNA Part A"},{"issue":"2","key":"52979_CR9","doi-asserted-by":"publisher","first-page":"216","DOI":"10.1016\/j.gene.2015.07.041","volume":"573","author":"X Mu","year":"2015","unstructured":"Mu, X. et al. An unusual mitochondrial genome structure of the tonguefish, Cynoglossus trigrammus: Control region translocation and a long additional non-coding region inversion. Gene 573(2), 216\u2013224 (2015).","journal-title":"Gene"},{"issue":"1","key":"52979_CR10","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1038\/s41598-021-81622-9","volume":"11","author":"K Zhang","year":"2021","unstructured":"Zhang, K. et al. Novel gene rearrangement in the mitochondrial genome of Muraenesox cinereus and the phylogenetic relationship of Anguilliformes. Sci. Rep. 11(1), 1\u201314. https:\/\/doi.org\/10.1038\/s41598-021-81622-9 (2021).","journal-title":"Sci. Rep."},{"issue":"1","key":"52979_CR11","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1038\/s41598-022-09512-2","volume":"12","author":"P Monta\u00f1a-Lozano","year":"2022","unstructured":"Monta\u00f1a-Lozano, P. et al. Comparative genomic analysis of vertebrate mitochondrial reveals a differential of rearrangements rate between taxonomic class. Sci. Rep. 12(1), 1\u201313 (2022).","journal-title":"Sci. Rep."},{"issue":"10","key":"52979_CR12","doi-asserted-by":"publisher","first-page":"9593","DOI":"10.1007\/s11033-022-07857-5","volume":"49","author":"A Pavan-Kumar","year":"2022","unstructured":"Pavan-Kumar, A. et al. Complete mitochondrial genome of freshwater pearl mussel Lamellidens marginalis (Lamarck, 1819) and its phylogenetic relation within unionidae family. Mol. Biol. Rep. 49(10), 9593\u20139603 (2022).","journal-title":"Mol. Biol. Rep."},{"issue":"6","key":"52979_CR13","doi-asserted-by":"publisher","first-page":"e0268064","DOI":"10.1371\/journal.pone.0268064","volume":"17","author":"L Yan","year":"2022","unstructured":"Yan, L. et al. Complete mitochondrial genome of Episymploce splendens (Blattodea: Ectobiidae): A large intergenic spacer and lacking of two tRNA genes. Plos one 17(6), e0268064. https:\/\/doi.org\/10.1371\/journal.pone.0268064 (2022).","journal-title":"Plos one"},{"issue":"2","key":"52979_CR14","doi-asserted-by":"publisher","first-page":"e0282460","DOI":"10.1371\/journal.pone.0282460","volume":"18","author":"IS Chen","year":"2023","unstructured":"Chen, I. S. & Jang-Liaw, N. H. Phylogeography of Aphyocypris normalis Nichols and Pope, 1927 at Hainan Island and adjacent areas based on mitochondrial DNA data. Plos One 18(2), e0282460 (2023).","journal-title":"Plos One"},{"issue":"2","key":"52979_CR15","doi-asserted-by":"publisher","first-page":"397","DOI":"10.3390\/genes14020397","volume":"14","author":"B Navarro-Dom\u00ednguez","year":"2023","unstructured":"Navarro-Dom\u00ednguez, B. et al. Tandem repeat DNA provides many cytological markers for hybrid zone analysis in two subspecies of the grasshopper Chorthippus parallelus. Genes 14(2), 397 (2023).","journal-title":"Genes"},{"issue":"2","key":"52979_CR16","doi-asserted-by":"publisher","first-page":"490","DOI":"10.1007\/s00343-019-9050-8","volume":"38","author":"L Cao","year":"2020","unstructured":"Cao, L., Song, X. & Zhang, E. The first mitogenome of the Nile pufferfish Tetraodon lineatus from Lake Turkana in East Africa: New insights into the genus. J. Oceanol. Limnol. 38(2), 490\u2013502 (2020).","journal-title":"J. Oceanol. Limnol."},{"issue":"2","key":"52979_CR17","doi-asserted-by":"publisher","first-page":"803","DOI":"10.1080\/23802359.2018.1467236","volume":"3","author":"Y Li","year":"2018","unstructured":"Li, Y., Cao, K. & Fu, C. Ten fish mitogenomes of the tribe Gobionini (Cypriniformes: Cyprinidae: Gobioninae). Mitochondr. DNA Part B 3(2), 803\u2013804 (2018).","journal-title":"Mitochondr. DNA Part B"},{"key":"52979_CR18","doi-asserted-by":"publisher","first-page":"1","DOI":"10.3897\/zookeys.1089.78182","volume":"1089","author":"AF Mar-Silva","year":"2022","unstructured":"Mar-Silva, A. F., Arroyave, J. & D\u00edaz-Jaimes, P. The complete mitochondrial genome of the Mexican-endemic cavefish Ophisternoninfernale (Synbranchiformes, Synbranchidae): Insights on patterns of selection and implications for synbranchiform phylogenetics. ZooKeys 1089, 1 (2022).","journal-title":"ZooKeys"},{"key":"52979_CR19","doi-asserted-by":"publisher","first-page":"1","DOI":"10.3390\/ijms21051874","volume":"2022","author":"L Ding","year":"2022","unstructured":"Ding, L., Luo, G., Zhou, Q., Sun, Y. & Liao, J. Comparative mitogenome analysis of gerbils and the mitogenome phylogeny of gerbillinae (Rodentia: Muridae). Biochem. Genet. 2022, 1\u201324. https:\/\/doi.org\/10.3390\/ijms21051874 (2022).","journal-title":"Biochem. Genet."},{"issue":"1","key":"52979_CR20","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1038\/s41598-022-10547-8","volume":"12","author":"D Kabiraj","year":"2022","unstructured":"Kabiraj, D. et al. Mitogenome-wise codon usage pattern from comparative analysis of the first mitogenome of Blepharipa sp. (Muga uzifly) with other Oestroid flies. Scientific Reports 12(1), 1\u201333 (2022).","journal-title":"Scientific Reports"},{"issue":"6","key":"52979_CR21","doi-asserted-by":"publisher","first-page":"317","DOI":"10.3390\/fishes7060317","volume":"7","author":"F Li","year":"2022","unstructured":"Li, F. et al. The Complete mitochondrial genome of hyotissa hyotis (Bivalvia: Gryphaeidae) reveals a unique gene order within ostreoidea. Fishes 7(6), 317 (2022).","journal-title":"Fishes"},{"issue":"1","key":"52979_CR22","doi-asserted-by":"publisher","first-page":"54","DOI":"10.1007\/BF00174041","volume":"41","author":"WJ Lee","year":"1995","unstructured":"Lee, W. J., Conroy, J., Howell, W. H. & Kocher, T. D. Structure and evolution of teleost mitochondrial control regions. J. Mol. Evol. 41(1), 54\u201366 (1995).","journal-title":"J. Mol. Evol."},{"issue":"1\u20132","key":"52979_CR23","doi-asserted-by":"publisher","first-page":"125","DOI":"10.1016\/S0378-1119(97)00404-6","volume":"205","author":"E Sbis\u00e0","year":"1997","unstructured":"Sbis\u00e0, E., Tanzariello, F., Reyes, A., Pesole, G. & Saccone, C. Mammalian mitochondrial D-loop region structural analysis: Identification of new conserved sequences and their functional and evolutionary implications. Gene 205(1\u20132), 125\u2013140 (1997).","journal-title":"Gene"},{"key":"52979_CR24","doi-asserted-by":"publisher","DOI":"10.1101\/2020.06.30.177956(2020)","author":"G Formenti","year":"2020","unstructured":"Formenti, G. et al. Complete vertebrate mitogenomes reveal widespread gene duplications and repeats. BioRxiv https:\/\/doi.org\/10.1101\/2020.06.30.177956(2020) (2020).","journal-title":"BioRxiv"},{"issue":"4","key":"52979_CR25","doi-asserted-by":"publisher","first-page":"301","DOI":"10.1038\/hdy.2008.62","volume":"101","author":"C Gissi","year":"2008","unstructured":"Gissi, C., Iannelli, F. & Pesole, G. Evolution of the mitochondrial genome of Metazoa as exemplified by comparison of congeneric species. Heredity 101(4), 301\u2013320. https:\/\/doi.org\/10.1038\/hdy.2008.62 (2008).","journal-title":"Heredity"},{"issue":"5","key":"52979_CR26","doi-asserted-by":"publisher","first-page":"447","DOI":"10.1007\/s00360-002-0274-z","volume":"172","author":"T Sakamoto","year":"2002","unstructured":"Sakamoto, T., Yasunaga, H., Yokota, S. & Ando, M. Differential display of skin mRNAs regulated under varying environmental conditions in a mudskipper. J. Compar. Physiol. B 172(5), 447\u2013453 (2002).","journal-title":"J. Compar. Physiol. B"},{"issue":"1","key":"52979_CR27","doi-asserted-by":"publisher","first-page":"103","DOI":"10.1007\/s41208-019-00189-5","volume":"36","author":"MP Tan","year":"2020","unstructured":"Tan, M. P. et al. Genetic diversity of the Pearse\u2019s mudskipper Periophthalmus novemradiatus (Perciformes: Gobiidae) and characterization of its complete mitochondrial genome. Thalassas Int. J. Mar. Sci. 36(1), 103\u2013113. https:\/\/doi.org\/10.1007\/s41208-019-00189-5 (2020).","journal-title":"Thalassas Int. J. Mar. Sci."},{"issue":"5","key":"52979_CR28","first-page":"842","volume":"55","author":"P Theeranukul","year":"2021","unstructured":"Theeranukul, P. et al. Genetic diversity of blue-spotted mudskipper (Boleophthalmus boddarti) populations in Gulf of Thailand. Agric. Nat. Resourc. 55(5), 842\u2013851 (2021).","journal-title":"Agric. Nat. Resourc."},{"issue":"1","key":"52979_CR29","doi-asserted-by":"publisher","first-page":"31","DOI":"10.3109\/19401736.2011.643879","volume":"23","author":"ZZ Liu","year":"2012","unstructured":"Liu, Z. Z. et al. Complete mitochondrial genome of the mudskipper Boleophthalmus pectinirostris (Perciformes, Gobiidae): Repetitive sequences in the control region. Mitochondr. DNA 23(1), 31\u201333 (2012).","journal-title":"Mitochondr. DNA"},{"issue":"2","key":"52979_CR30","doi-asserted-by":"publisher","first-page":"185","DOI":"10.3109\/19401736.2015.1115501","volume":"28","author":"H Qiu","year":"2017","unstructured":"Qiu, H. et al. Complete mitochondrial genome and phylogenetic analysis of the barred mudskipper Periophthalmus argentilineatus (Perciformes, Gobiidae). Mitochondr. DNA Part A 28(2), 185\u2013186 (2017).","journal-title":"Mitochondr. DNA Part A"},{"key":"52979_CR31","doi-asserted-by":"publisher","first-page":"939","DOI":"10.1016\/j.ijbiomac.2020.07.142","volume":"164","author":"A Sharma","year":"2020","unstructured":"Sharma, A. et al. The complete mitochondrial genome of the medicinal fish, Cyprinion semiplotum: Insight into its structural features and phylogenetic implications. Int. J. Biol. Macromol. 164, 939\u2013948. https:\/\/doi.org\/10.1016\/j.ijbiomac.2020.07.142 (2020).","journal-title":"Int. J. Biol. Macromol."},{"issue":"3","key":"52979_CR32","doi-asserted-by":"publisher","first-page":"362","DOI":"10.3390\/ani13030362","volume":"13","author":"T Yang","year":"2023","unstructured":"Yang, T., Liu, Y. & Ning, Z. Comparative mitogenomic analysis of two snake eels reveals irregular gene rearrangement and phylogenetic implications of ophichthidae. Animals 13(3), 362. https:\/\/doi.org\/10.3390\/ani13030362 (2023).","journal-title":"Animals"},{"key":"52979_CR33","doi-asserted-by":"publisher","first-page":"75","DOI":"10.1016\/j.gene.2019.01.035","volume":"695","author":"LI Gong","year":"2019","unstructured":"Gong, L. I. et al. Large-scale mitochondrial gene rearrangements in the hermit crab Pagurus nigrofascia and phylogenetic analysis of the Anomura. Gene 695, 75\u201383 (2019).","journal-title":"Gene"},{"key":"52979_CR34","doi-asserted-by":"publisher","first-page":"627402","DOI":"10.3389\/fgene.2021.627402","volume":"12","author":"CH Sun","year":"2021","unstructured":"Sun, C. H. et al. Mitochondrial genome structures and phylogenetic analyses of two tropical characidae fishes. Front. Genet. 12, 627402. https:\/\/doi.org\/10.3389\/fgene.2021.627402 (2021).","journal-title":"Front. Genet."},{"key":"52979_CR35","doi-asserted-by":"publisher","first-page":"181","DOI":"10.3897\/zookeys.546.5964","volume":"546","author":"L Zhao","year":"2015","unstructured":"Zhao, L., Gao, T. & Lu, W. Complete mitochondrial DNA sequence of the endangered fish (Bahaba taipingensis): Mitogenome characterization and phylogenetic implications. ZooKeys 546, 181. https:\/\/doi.org\/10.3897\/zookeys.546.5964 (2015).","journal-title":"ZooKeys"},{"issue":"2","key":"52979_CR36","doi-asserted-by":"publisher","first-page":"142","DOI":"10.3109\/19401736.2012.660930","volume":"23","author":"X Jin","year":"2012","unstructured":"Jin, X., Wang, R., Xu, T. & Shi, G. Complete mitochondrial genome of Oxuderces dentatus (Perciformes, Gobioidei). Mitochondr. DNA 23(2), 142\u2013144. https:\/\/doi.org\/10.3109\/19401736.2012.660930 (2012).","journal-title":"Mitochondr. DNA"},{"key":"52979_CR37","doi-asserted-by":"publisher","first-page":"1874","DOI":"10.3390\/ijms21051874","volume":"21","author":"H Ruan","year":"2020","unstructured":"Ruan, H., Li, M., Li, Z., Huang, J. & Zou, K. Comparative analysis of complete mitochondrial genomes of three gerres fishes (Perciformes: Gerreidae) and primary exploration of their evolution history. Int. J. Mol. Sci. 21, 1874 (2020).","journal-title":"Int. J. Mol. Sci."},{"issue":"5","key":"52979_CR38","doi-asserted-by":"publisher","first-page":"1874","DOI":"10.3390\/ijms21051874","volume":"21","author":"H Ruan","year":"2020","unstructured":"Ruan, H. et al. Comparative analysis of complete mitochondrial genomes of three Gerres fishes (Perciformes: Gerreidae) and primary exploration of their evolution history. Int. J. Mol. Sci. 21(5), 1874. https:\/\/doi.org\/10.3390\/ijms21051874 (2020).","journal-title":"Int. J. Mol. Sci."},{"key":"52979_CR39","doi-asserted-by":"publisher","first-page":"662501","DOI":"10.3389\/fevo.2021.662501","volume":"9","author":"KK Sam","year":"2021","unstructured":"Sam, K. K., Lau, N. S., Shu-Chien, A. C., Muchlisin, Z. A. & Nugroho, R. A. Complete mitochondrial genomes of Paedocypris micromegethes and Paedocypris carbunculus reveal conserved gene order and phylogenetic relationships of miniaturized cyprinids. Front. Ecol. Evol. 9, 662501. https:\/\/doi.org\/10.3389\/fevo.2021.662501 (2021).","journal-title":"Front. Ecol. Evol."},{"issue":"1","key":"52979_CR40","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1186\/1471-2164-14-633","volume":"14","author":"A Kurabayashi","year":"2013","unstructured":"Kurabayashi, A. & Sumida, M. Afrobatrachian mitochondrial genomes: Genome reorganization, gene rearrangement mechanisms, and evolutionary trends of duplicated and rearranged genes. BMC Genom. 14(1), 1\u201317. https:\/\/doi.org\/10.1186\/1471-2164-14-633 (2013).","journal-title":"BMC Genom."},{"key":"52979_CR41","doi-asserted-by":"publisher","first-page":"173","DOI":"10.1016\/S0074-7696(08)62066-5","volume":"141","author":"DR Wolstenholme","year":"1992","unstructured":"Wolstenholme, D. R. Animal mitochondrial DNA: Structure and evolution. Int. Rev. Cytol. 141, 173\u2013216. https:\/\/doi.org\/10.1016\/S0074-7696(08)62066-5 (1992).","journal-title":"Int. Rev. Cytol."},{"key":"52979_CR42","unstructured":"Gong, L., Shi, W., Si, L. Z., & Kong, X. Y. Rearrangement of mitochondrial genome in fishes. https:\/\/hdl.handle.net\/1807\/64925 (2013)."},{"key":"52979_CR43","doi-asserted-by":"publisher","first-page":"1232","DOI":"10.1016\/j.ijbiomac.2020.02.017","volume":"149","author":"L Gong","year":"2020","unstructured":"Gong, L. et al. Novel gene rearrangement pattern in Cynoglossus melampetalus mitochondrial genome: New gene order in genus Cynoglossus (Pleuronectiformes: Cynoglossidae). Int. J. Biol. Macromol. 149, 1232\u20131240. https:\/\/doi.org\/10.1016\/j.ijbiomac.2020.02.017 (2020).","journal-title":"Int. J. Biol. Macromol."},{"issue":"12","key":"52979_CR44","doi-asserted-by":"publisher","first-page":"975","DOI":"10.1186\/s12864-015-1581-6","volume":"52","author":"X Kong","year":"2009","unstructured":"Kong, X. et al. A novel rearrangement in the mitochondrial genome of tongue sole, Cynoglossus semilaevis: Control region translocation and a tRNA gene inversion. Genome 52(12), 975\u2013984. https:\/\/doi.org\/10.1186\/s12864-015-1581-6 (2009).","journal-title":"Genome"},{"key":"52979_CR45","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1007\/s12041-021-01292-4","volume":"100","author":"S Chandhini","year":"2021","unstructured":"Chandhini, S. et al. Whole mitogenome analysis and phylogeny of freshwater fish red-finned catopra (Pristolepis rubripinnis) endemic to Kerala, India. J. Genet. 100, 1\u20138. https:\/\/doi.org\/10.1007\/s12041-021-01292-4 (2021).","journal-title":"J. Genet."},{"issue":"2","key":"52979_CR46","doi-asserted-by":"publisher","first-page":"163","DOI":"10.1093\/oxfordjournals.molbev.a004068","volume":"19","author":"DV Lavrov","year":"2002","unstructured":"Lavrov, D. V., Boore, J. L. & Brown, W. M. Complete mtDNA sequences of two millipedes suggest a new model for mitochondrial gene rearrangements: Duplication and nonrandom loss. Mol. Biol. Evol. 19(2), 163\u2013169. https:\/\/doi.org\/10.1093\/oxfordjournals.molbev.a004068 (2002).","journal-title":"Mol. Biol. Evol."},{"issue":"1","key":"52979_CR47","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1186\/1471-2164-15-352","volume":"15","author":"W Shi","year":"2014","unstructured":"Shi, W., Miao, X. G. & Kong, X. Y. A novel model of double replications and random loss accounts for rearrangements in the Mitogenome of Samariscus latus (Teleostei: Pleuronectiformes). BMC Genom. 15(1), 1\u20139. https:\/\/doi.org\/10.1186\/1471-2164-15-352 (2014).","journal-title":"BMC Genom."},{"issue":"4771","key":"52979_CR48","doi-asserted-by":"publisher","first-page":"1425","DOI":"10.1126\/science.3018925","volume":"233","author":"C Moritz","year":"1986","unstructured":"Moritz, C. & Brown, W. M. Tandem duplication of D-loop and ribosomal RNA sequences in lizard mitochondrial DNA. Science 233(4771), 1425\u20131427 (1986).","journal-title":"Science"},{"issue":"1","key":"52979_CR49","doi-asserted-by":"publisher","first-page":"129","DOI":"10.1016\/j.ympev.2006.02.014","volume":"40","author":"TP Satoh","year":"2006","unstructured":"Satoh, T. P., Miya, M., Endo, H. & Nishida, M. Round and pointed-head grenadier fishes (Actinopterygii: Gadiformes) represent a single sister group: Evidence from the complete mitochondrial genome sequences. Mol. Phylogenet. Evol. 40(1), 129\u2013138 (2006).","journal-title":"Mol. Phylogenet. Evol."},{"key":"52979_CR50","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1186\/s12864-016-3054-y","volume":"17","author":"TP Satoh","year":"2016","unstructured":"Satoh, T. P., Miya, M., Mabuchi, K. & Nishida, M. Structure and variation of the mitochondrial genome of fishes. BMC Genom. 17, 1\u201320. https:\/\/doi.org\/10.1186\/s12864-016-3054-y (2016).","journal-title":"BMC Genom."},{"issue":"1","key":"52979_CR51","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1186\/gb-2013-14-1-r10","volume":"14","author":"DP Melters","year":"2013","unstructured":"Melters, D. P. et al. Comparative analysis of tandem repeats from hundreds of species reveals unique insights into centromere evolution. Genome Biol. 14(1), 1\u201320. https:\/\/doi.org\/10.1186\/gb-2013-14-1-r10 (2013).","journal-title":"Genome Biol."},{"key":"52979_CR52","doi-asserted-by":"publisher","DOI":"10.1111\/jfb.15263","author":"L Cao","year":"2022","unstructured":"Cao, L. et al. Genetic characteristics and growth patterns of the hybrid grouper derived from the hybridization of Epinephelus fuscoguttatus (female)\u00d7 Epinephelus polyphekadion (male). J. Fish Biol. https:\/\/doi.org\/10.1111\/jfb.15263 (2022).","journal-title":"J. Fish Biol."},{"issue":"3","key":"52979_CR53","doi-asserted-by":"publisher","first-page":"310","DOI":"10.1006\/mpev.1998.0530","volume":"10","author":"JE Faber","year":"1998","unstructured":"Faber, J. E. & Stepien, C. A. Tandemly repeated sequences in the mitochondrial DNA control region and phylogeography of the pike-perchesstizostedion. Mol. Phylogenet. Evol. 10(3), 310\u2013322. https:\/\/doi.org\/10.1006\/mpev.1998.0530 (1998).","journal-title":"Mol. Phylogenet. Evol."},{"issue":"6","key":"52979_CR54","doi-asserted-by":"publisher","first-page":"1741","DOI":"10.3390\/ijms19061741","volume":"19","author":"H Yang","year":"2018","unstructured":"Yang, H. et al. Characterization of the complete mitochondrial genome sequences of three croakers (perciformes, sciaenidae) and novel insights into the phylogenetics. Int. J. Mol. Sci. 19(6), 1741. https:\/\/doi.org\/10.3390\/ijms19061741 (2018).","journal-title":"Int. J. Mol. Sci."},{"issue":"1507","key":"52979_CR55","doi-asserted-by":"publisher","first-page":"2373","DOI":"10.1098\/rspb.2002.2145","volume":"269","author":"E Gorokhova","year":"2002","unstructured":"Gorokhova, E., Dowling, T. E., Weider, L. J., Crease, T. J. & Elser, J. J. Functional and ecological significance of rDNA intergenic spacer variation in a clonal organism under divergent selection for production rate. Proc. R. Soc. Lond. Ser. B Biol. Sci. 269(1507), 2373\u20132379. https:\/\/doi.org\/10.1098\/rspb.2002.2145 (2002).","journal-title":"Proc. R. Soc. Lond. Ser. B Biol. Sci."},{"issue":"1","key":"52979_CR56","doi-asserted-by":"publisher","first-page":"68","DOI":"10.3390\/insects13010068","volume":"13","author":"J Xiao","year":"2022","unstructured":"Xiao, J. et al. Mitogenomes of nine Asian skipper genera and their phylogenetic position (Lepidoptera: Hesperiidae: Pyrginae). Insects 13(1), 68. https:\/\/doi.org\/10.3390\/insects13010068 (2022).","journal-title":"Insects"},{"issue":"13","key":"52979_CR57","doi-asserted-by":"publisher","first-page":"1595","DOI":"10.3390\/ani12131595","volume":"12","author":"M Xu","year":"2022","unstructured":"Xu, M., Zhou, S. & Wan, X. Phylogenetic implication of large intergenic spacers: Insights from a Mitogenomic comparison of Prosopocoilus Stag Beetles (Coleoptera: Lucanidae). Animals 12(13), 1595. https:\/\/doi.org\/10.3390\/ani12131595 (2022).","journal-title":"Animals"},{"issue":"2","key":"52979_CR58","doi-asserted-by":"publisher","first-page":"170","DOI":"10.3390\/insects12020170","volume":"12","author":"R Li","year":"2021","unstructured":"Li, R., Lei, Z., Li, W., Zhang, W. & Zhou, C. Comparative mitogenomic analysis of heptageniid mayflies (Insecta: Ephemeroptera): Conserved intergenic spacer and trna gene duplication. Insects 12(2), 170. https:\/\/doi.org\/10.3390\/insects12020170 (2021).","journal-title":"Insects"},{"key":"52979_CR59","doi-asserted-by":"publisher","first-page":"307","DOI":"10.1007\/s13258-010-0154-y","volume":"33","author":"M Yoon","year":"2011","unstructured":"Yoon, M., Kim, K. Y., Bang, I. C., Nam, Y. K. & Kim, D. S. Complete mitogenome sequence of the Chinese medaka Oryzias sinensis (Teleostei: Beloniformes) and its phylogenetic analysis. Genes Genom. 33, 307\u2013312. https:\/\/doi.org\/10.1007\/s13258-010-0154-y (2011).","journal-title":"Genes Genom."},{"issue":"8","key":"52979_CR60","doi-asserted-by":"publisher","first-page":"e0134580","DOI":"10.1371\/journal.pone.0134580","volume":"10","author":"DH Li","year":"2015","unstructured":"Li, D. H., Shi, W., Munroe, T. A., Gong, L. & Kong, X. Y. Concerted evolution of duplicate control regions in the mitochondria of species of the flatfish family Bothidae (Teleostei: Pleuronectiformes). PLoS One 10(8), e0134580 (2015).","journal-title":"PLoS One"},{"key":"52979_CR61","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1186\/1471-2148-13-173","volume":"13","author":"W Shi","year":"2013","unstructured":"Shi, W. et al. Complete mitogenome sequences of four flatfishes (Pleuronectiformes) reveal a novel gene arrangement of L-strand coding genes. BMC Evol. Biol. 13, 1\u20139. https:\/\/doi.org\/10.1186\/1471-2148-13-173 (2013).","journal-title":"BMC Evol. Biol."},{"key":"52979_CR62","doi-asserted-by":"publisher","first-page":"165","DOI":"10.1007\/s10709-019-00059-1","volume":"147","author":"P Yu","year":"2019","unstructured":"Yu, P. et al. Comparative mitogenomic and phylogenetic analysis of Apalone spinifera and Apalone ferox (Testudines: Trionychidae). Genetica 147, 165\u2013176 (2019).","journal-title":"Genetica"},{"issue":"1","key":"52979_CR63","first-page":"75","volume":"38","author":"H Chen","year":"2014","unstructured":"Chen, H., Polgar, G., Yin, W. & Fu, C. Z. Cryptic species and evolutionary history of the Boleophthalmus pectinirostris complex, along the northwestern Pacific coast. Acta Hydrobiol. Sin. 38(1), 75\u201386 (2014).","journal-title":"Acta Hydrobiol. Sin."},{"key":"52979_CR64","doi-asserted-by":"publisher","first-page":"186","DOI":"10.22271\/fish.2022.v10.i3c.2721","volume":"10","author":"O Sokefun","year":"2022","unstructured":"Sokefun, O., Gan, H. M. & Tan, M. P. Phylogenetic position of the Atlantic Mudskipper (Periophthalmus barbarus) (Linnaeus, 1766)(Perciformes: Gobiidae): The congruence of the complete mitogenome and the CO1 gene region. Int. J. Fish. Aquat. Stud. 10, 186 (2022).","journal-title":"Int. J. Fish. Aquat. Stud."},{"key":"52979_CR65","doi-asserted-by":"publisher","first-page":"725","DOI":"10.1007\/s00227-008-1124-7","volume":"156","author":"J Herler","year":"2009","unstructured":"Herler, J., Koblm\u00fcller, S. & Sturmbauer, C. Phylogenetic relationships of coral-associated gobies (Teleostei, Gobiidae) from the Red Sea based on mitochondrial DNA data. Mar. Biol. 156, 725\u2013739. https:\/\/doi.org\/10.1007\/s00227-008-1124-7 (2009).","journal-title":"Mar. Biol."},{"issue":"5","key":"52979_CR66","doi-asserted-by":"publisher","first-page":"4362","DOI":"10.3390\/ijms24054362","volume":"24","author":"Z L\u00fc","year":"2023","unstructured":"L\u00fc, Z. et al. Amblyopinae mitogenomes provide novel insights into the paraphyletic origin of their adaptation to mudflat habitats. Int. J. Mol. Sci. 24(5), 4362 (2023).","journal-title":"Int. J. Mol. Sci."},{"issue":"1","key":"52979_CR67","doi-asserted-by":"publisher","first-page":"281","DOI":"10.1111\/jfb.15237","volume":"102","author":"V Muhala","year":"2023","unstructured":"Muhala, V. et al. First record of mudskipper Boleophthalmus dussumieri (Gobiidae: Oxudercinae) on the coast of Mozambique and evidence of two putative lineages along its known distribution range. J. Fish Biol. 102(1), 281\u2013286. https:\/\/doi.org\/10.1111\/jfb.15237 (2023).","journal-title":"J. Fish Biol."},{"key":"52979_CR68","doi-asserted-by":"publisher","first-page":"e77","DOI":"10.1017\/S0025315423000668","volume":"103","author":"V Muhala","year":"2023","unstructured":"Muhala, V. et al. Molecular evidence for the first records and range extension of the great seahorse (Hippocampus kelloggi, Jordan & Snyder, 1901) in Quelimane, central coast of Mozambique. J. Mar. Biol. Assoc. U. K. 103, e77. https:\/\/doi.org\/10.1017\/S0025315423000668 (2023).","journal-title":"J. Mar. Biol. Assoc. U. K."},{"issue":"2","key":"52979_CR69","doi-asserted-by":"publisher","first-page":"313","DOI":"10.1016\/j.ympev.2012.08.023","volume":"69","author":"M Bernt","year":"2013","unstructured":"Bernt, M. et al. MITOS: Improved de novo metazoan mitochondrial genome annotation. Mol. Phylogenet. Evol. 69(2), 313\u2013319. https:\/\/doi.org\/10.1016\/j.ympev.2012.08.023 (2013).","journal-title":"Mol. Phylogenet. Evol."},{"issue":"7","key":"52979_CR70","doi-asserted-by":"publisher","first-page":"3022","DOI":"10.1093\/molbev\/msab120","volume":"38","author":"K Tamura","year":"2021","unstructured":"Tamura, K., Stecher, G. & Kumar, S. MEGA11: Molecular evolutionary genetics analysis version 11. Mol. Biol. Evol. 38(7), 3022\u20133027. https:\/\/doi.org\/10.1093\/molbev\/msab120 (2021).","journal-title":"Mol. Biol. Evol."},{"issue":"1","key":"52979_CR71","doi-asserted-by":"publisher","first-page":"348","DOI":"10.1111\/1755-0998.13096","volume":"20","author":"D Zhang","year":"2020","unstructured":"Zhang, D. et al. PhyloSuite: An integrated and scalable desktop platform for streamlined molecular sequence data management and evolutionary phylogenetics studies. Mol. Ecol. Resourc. 20(1), 348\u2013355. https:\/\/doi.org\/10.1111\/1755-0998.13096 (2020).","journal-title":"Mol. Ecol. Resourc."},{"issue":"8","key":"52979_CR72","doi-asserted-by":"publisher","first-page":"1969","DOI":"10.1093\/molbev\/mss075","volume":"29","author":"AJ Drummond","year":"2012","unstructured":"Drummond, A. J., Suchard, M. A., Xie, D. & Rambaut, A. Bayesian phylogenetics with BEAUti and the BEAST 1.7. Mol. Biol. Evol. 29(8), 1969\u20131973 (2012).","journal-title":"Mol. Biol. Evol."},{"issue":"5","key":"52979_CR73","doi-asserted-by":"publisher","first-page":"e88","DOI":"10.1371\/journal.pbio.0040088","volume":"4","author":"AJ Drummond","year":"2006","unstructured":"Drummond, A. J., Ho, S. Y. W., Phillips, M. J. & Rambaut, A. Relaxed phylogenetics and dating with confidence. PLoS biol. 4(5), e88 (2006).","journal-title":"PLoS biol."},{"issue":"4","key":"52979_CR74","doi-asserted-by":"publisher","first-page":"769","DOI":"10.1016\/j.jtbi.2008.04.005","volume":"253","author":"T Gernhard","year":"2008","unstructured":"Gernhard, T. The conditioned reconstructed process. J. Theor. Biol. 253(4), 769\u2013778 (2008).","journal-title":"J. Theor. Biol."},{"key":"52979_CR75","doi-asserted-by":"publisher","first-page":"410","DOI":"10.1007\/s10228-005-0295-1","volume":"52","author":"T Mukai","year":"2005","unstructured":"Mukai, T., Nakamura, S., Suzuki, T. & Nishida, M. Mitochondrial DNA divergence in yoshinobori gobies (Rhinogobius species complex) between the Bonin Islands and the Japan-Ryukyu Archipelago. Ichthyol. Res. 52, 410\u2013413 (2005).","journal-title":"Ichthyol. Res."},{"issue":"1","key":"52979_CR76","doi-asserted-by":"publisher","first-page":"15645","DOI":"10.1038\/srep15645","volume":"5","author":"L He","year":"2015","unstructured":"He, L., Mukai, T., Hou Chu, K., Ma, Q. & Zhang, J. Biogeographical role of the Kuroshio current in the amphibious mudskipper Periophthalmus modestus indicated by mitochondrial DNA data. Sci. Rep. 5(1), 15645. https:\/\/doi.org\/10.1038\/srep15645 (2015).","journal-title":"Sci. Rep."},{"key":"52979_CR77","unstructured":"Rambaut, A., Surchard, M. A., Xie, D. & Drummond, A. J. Tracer v1.6. http:\/\/beast.bio.ed.ac.uk\/Tracer (2014)."}],"container-title":["Scientific Reports"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.nature.com\/articles\/s41598-024-52979-4.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.nature.com\/articles\/s41598-024-52979-4","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.nature.com\/articles\/s41598-024-52979-4.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,2,9]],"date-time":"2024-02-09T10:04:34Z","timestamp":1707473074000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.nature.com\/articles\/s41598-024-52979-4"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2024,2,9]]},"references-count":77,"journal-issue":{"issue":"1","published-online":{"date-parts":[[2024,12]]}},"alternative-id":["52979"],"URL":"https:\/\/doi.org\/10.1038\/s41598-024-52979-4","relation":{"has-preprint":[{"id-type":"doi","id":"10.21203\/rs.3.rs-3207876\/v1","asserted-by":"object"}]},"ISSN":["2045-2322"],"issn-type":[{"value":"2045-2322","type":"electronic"}],"subject":[],"published":{"date-parts":[[2024,2,9]]},"assertion":[{"value":"27 July 2023","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"25 January 2024","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"9 February 2024","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"The authors declare no competing interests.","order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Competing interests"}}],"article-number":"3358"}}