Complete Mitochondrial Genome of <i>Niphon spinosus</i> (Perciformes: Niphonidae): Genome Characterization and Phylogenetic Analysis
The species <i>Niphon spinosus</i> (Cuvier, 1829) is the only representative of the family Niphonidae and the genus <i>Niphon</i>, and its taxonomic history is complicated; it is still unclear in a phylogenetic sense. In this study, we report the complete mitochondrial genome...
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2025-01-01
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| author | Maheshkumar Prakash Patil Jong-Oh Kim Seung Hyun Yoo Jiyoung Shin Ji-Young Yang Kyunghoi Kim Gun-Do Kim |
| author_facet | Maheshkumar Prakash Patil Jong-Oh Kim Seung Hyun Yoo Jiyoung Shin Ji-Young Yang Kyunghoi Kim Gun-Do Kim |
| author_sort | Maheshkumar Prakash Patil |
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| description | The species <i>Niphon spinosus</i> (Cuvier, 1829) is the only representative of the family Niphonidae and the genus <i>Niphon</i>, and its taxonomic history is complicated; it is still unclear in a phylogenetic sense. In this study, we report the complete mitochondrial genome of <i>N. spinosus</i> (OP391482), which was determined to be 16,503 bp long with biased A + T contents (53.8%) using next-generation technology. The typical set of 13 protein-coding genes (PCGs), 2 rRNA genes, 22 tRNA genes, and one control region (D-loop) are included in the mitochondrial genome. The H-strand encoded 28 genes (14 tRNA, 2 rRNA, and 12 PCGs), and D-loop, whereas the L-strand encoded the remaining 9 genes (8 tRNA and <i>ND6</i>). Its nucleotide composition, gene arrangement, codon usage patterns, and tRNA secondary structures are identical with other members of the Percoidei suborder. Furthermore, we reconstructed phylogenetic trees based on the 13 PCGs. The resulting phylogenetic trees showed <i>N. spinosus</i> placing as a separate lineage within the family Niphonidae, its close relationship to <i>Trachinus draco</i> (Trachinidae), and the clustering of major subfamilies like Luciopercinae and Percinae of the Percoidei suborder. These findings will contribute to future studies on the evolutionary history, population genetics, molecular taxonomy, and phylogeny of <i>N. spinosus</i> and related species. |
| format | Article |
| id | doaj-art-2518714cdfeb4a65b5ea79987b847734 |
| institution | Kabale University |
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| language | English |
| publishDate | 2025-01-01 |
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| series | Biomolecules |
| spelling | doaj-art-2518714cdfeb4a65b5ea79987b8477342025-01-24T13:25:00ZengMDPI AGBiomolecules2218-273X2025-01-011515210.3390/biom15010052Complete Mitochondrial Genome of <i>Niphon spinosus</i> (Perciformes: Niphonidae): Genome Characterization and Phylogenetic AnalysisMaheshkumar Prakash Patil0Jong-Oh Kim1Seung Hyun Yoo2Jiyoung Shin3Ji-Young Yang4Kyunghoi Kim5Gun-Do Kim6Industry-University Cooperation Foundation, Pukyong National University, 45 Yongso-ro, Nam-Gu, Busan 48513, Republic of KoreaDepartment of Microbiology, Pukyong National University, 45 Yongso-ro, Nam-Gu, Busan 48513, Republic of KoreaSchool of Marine and Fisheries Life Science, Pukyong National University, 45 Yongso-ro, Nam-Gu, Busan 48513, Republic of KoreaInstitute of Food Science, Pukyong National University, 45 Yongso-ro, Nam-Gu, Busan 48513, Republic of KoreaDepartment of Food Science and Technology, Pukyong National University, 45 Yongso-ro, Nam-Gu, Busan 48513, Republic of KoreaDepartment of Ocean Engineering, Pukyong National University, 45 Yongso-ro, Nam-Gu, Busan 48513, Republic of KoreaDepartment of Microbiology, Pukyong National University, 45 Yongso-ro, Nam-Gu, Busan 48513, Republic of KoreaThe species <i>Niphon spinosus</i> (Cuvier, 1829) is the only representative of the family Niphonidae and the genus <i>Niphon</i>, and its taxonomic history is complicated; it is still unclear in a phylogenetic sense. In this study, we report the complete mitochondrial genome of <i>N. spinosus</i> (OP391482), which was determined to be 16,503 bp long with biased A + T contents (53.8%) using next-generation technology. The typical set of 13 protein-coding genes (PCGs), 2 rRNA genes, 22 tRNA genes, and one control region (D-loop) are included in the mitochondrial genome. The H-strand encoded 28 genes (14 tRNA, 2 rRNA, and 12 PCGs), and D-loop, whereas the L-strand encoded the remaining 9 genes (8 tRNA and <i>ND6</i>). Its nucleotide composition, gene arrangement, codon usage patterns, and tRNA secondary structures are identical with other members of the Percoidei suborder. Furthermore, we reconstructed phylogenetic trees based on the 13 PCGs. The resulting phylogenetic trees showed <i>N. spinosus</i> placing as a separate lineage within the family Niphonidae, its close relationship to <i>Trachinus draco</i> (Trachinidae), and the clustering of major subfamilies like Luciopercinae and Percinae of the Percoidei suborder. These findings will contribute to future studies on the evolutionary history, population genetics, molecular taxonomy, and phylogeny of <i>N. spinosus</i> and related species.https://www.mdpi.com/2218-273X/15/1/52<i>Niphon spinosus</i>PercoideiPerciformesmitogenomephylogenetic analysissawedged perch |
| spellingShingle | Maheshkumar Prakash Patil Jong-Oh Kim Seung Hyun Yoo Jiyoung Shin Ji-Young Yang Kyunghoi Kim Gun-Do Kim Complete Mitochondrial Genome of <i>Niphon spinosus</i> (Perciformes: Niphonidae): Genome Characterization and Phylogenetic Analysis Biomolecules <i>Niphon spinosus</i> Percoidei Perciformes mitogenome phylogenetic analysis sawedged perch |
| title | Complete Mitochondrial Genome of <i>Niphon spinosus</i> (Perciformes: Niphonidae): Genome Characterization and Phylogenetic Analysis |
| title_full | Complete Mitochondrial Genome of <i>Niphon spinosus</i> (Perciformes: Niphonidae): Genome Characterization and Phylogenetic Analysis |
| title_fullStr | Complete Mitochondrial Genome of <i>Niphon spinosus</i> (Perciformes: Niphonidae): Genome Characterization and Phylogenetic Analysis |
| title_full_unstemmed | Complete Mitochondrial Genome of <i>Niphon spinosus</i> (Perciformes: Niphonidae): Genome Characterization and Phylogenetic Analysis |
| title_short | Complete Mitochondrial Genome of <i>Niphon spinosus</i> (Perciformes: Niphonidae): Genome Characterization and Phylogenetic Analysis |
| title_sort | complete mitochondrial genome of i niphon spinosus i perciformes niphonidae genome characterization and phylogenetic analysis |
| topic | <i>Niphon spinosus</i> Percoidei Perciformes mitogenome phylogenetic analysis sawedged perch |
| url | https://www.mdpi.com/2218-273X/15/1/52 |
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