Complete mitochondrial genome of Dacus conopsoides (Insecta: Tephritidae) with tRNA gene duplication and molecular phylogeny of Dacini tribe
To date there is only a single report on the complete mitochondrial genome of the Dacus fruit flies. We report here the whole mitogenome of Dacus conopsoides with first report of tRNA gene duplication in tephritid fruit flies determined using next-generation sequencing and discuss the molecular phyl...
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2019
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| Online Access: | http://eprints.um.edu.my/23402/ https://doi.org/10.1016/j.aspen.2019.07.013 |
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| author | Song, Sze Looi Yong, Hoi Sen Suana, I. Wayan Lim, Phaik Eem Eamsobhana, Praphathip |
| author_facet | Song, Sze Looi Yong, Hoi Sen Suana, I. Wayan Lim, Phaik Eem Eamsobhana, Praphathip |
| author_sort | Song, Sze Looi |
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| content_provider | Universiti Malaya |
| content_source | UM Research Repository |
| continent | Asia |
| country | Malaysia |
| description | To date there is only a single report on the complete mitochondrial genome of the Dacus fruit flies. We report here the whole mitogenome of Dacus conopsoides with first report of tRNA gene duplication in tephritid fruit flies determined using next-generation sequencing and discuss the molecular phylogeny of Dacini tribe. It had a total length of 15,852 bp, comprising 13 protein coding genes, 2 rRNA genes, 23 tRNA genes, and a non-coding region (A + T-rich control region). The 65-bp trnF gene was duplicated, and the 68-bp trnE gene was partially duplicated resulting in a 31-bp pseudogene. The cloverleaf structure for trnN, trnH, and trnF lacked the TΨC-loop, while trnS lacked the D-stem. The start codons for the protein coding genes included 6 ATG, 3 ATC, 2 ATA, and 1 each of ATT and TCG. Seven PCGs had TAA stop codon, two had TAG and four had incomplete T stop codon. Molecular phylogeny based on 15 mt-genes (13 PCGs +2 rRNA genes) and 30 taxa of Tephritidae indicated D. conopsoides forming a monophyletic sister group with D. longicornis supported by high bootstrap value. The lineage containing also the monophyletic genus Zeugodacus. The Dacini and Ceratitidini tribes of the subfamily Dacinae were monophyletic but the subfamilies Dacinae and Trypetinae were paraphyletic. A broader taxa sampling of the Tephritidae is needed to better elucidate the phylogenetics and systematics of the tribes and subfamilies of tephritid fruit flies. © 2019 |
| format | Article |
| id | my.um.eprints-23402 |
| institution | Universiti Malaya |
| publishDate | 2019 |
| publisher | Elsevier |
| record_format | eprints |
| spelling | my.um.eprints-234022020-01-13T08:47:34Z http://eprints.um.edu.my/23402/ Complete mitochondrial genome of Dacus conopsoides (Insecta: Tephritidae) with tRNA gene duplication and molecular phylogeny of Dacini tribe Song, Sze Looi Yong, Hoi Sen Suana, I. Wayan Lim, Phaik Eem Eamsobhana, Praphathip Q Science (General) QH Natural history QR Microbiology R Medicine To date there is only a single report on the complete mitochondrial genome of the Dacus fruit flies. We report here the whole mitogenome of Dacus conopsoides with first report of tRNA gene duplication in tephritid fruit flies determined using next-generation sequencing and discuss the molecular phylogeny of Dacini tribe. It had a total length of 15,852 bp, comprising 13 protein coding genes, 2 rRNA genes, 23 tRNA genes, and a non-coding region (A + T-rich control region). The 65-bp trnF gene was duplicated, and the 68-bp trnE gene was partially duplicated resulting in a 31-bp pseudogene. The cloverleaf structure for trnN, trnH, and trnF lacked the TΨC-loop, while trnS lacked the D-stem. The start codons for the protein coding genes included 6 ATG, 3 ATC, 2 ATA, and 1 each of ATT and TCG. Seven PCGs had TAA stop codon, two had TAG and four had incomplete T stop codon. Molecular phylogeny based on 15 mt-genes (13 PCGs +2 rRNA genes) and 30 taxa of Tephritidae indicated D. conopsoides forming a monophyletic sister group with D. longicornis supported by high bootstrap value. The lineage containing also the monophyletic genus Zeugodacus. The Dacini and Ceratitidini tribes of the subfamily Dacinae were monophyletic but the subfamilies Dacinae and Trypetinae were paraphyletic. A broader taxa sampling of the Tephritidae is needed to better elucidate the phylogenetics and systematics of the tribes and subfamilies of tephritid fruit flies. © 2019 Elsevier 2019 Article PeerReviewed Song, Sze Looi and Yong, Hoi Sen and Suana, I. Wayan and Lim, Phaik Eem and Eamsobhana, Praphathip (2019) Complete mitochondrial genome of Dacus conopsoides (Insecta: Tephritidae) with tRNA gene duplication and molecular phylogeny of Dacini tribe. Journal of Asia-Pacific Entomology, 22 (3). pp. 997-1003. ISSN 1226-8615, DOI https://doi.org/10.1016/j.aspen.2019.07.013 <https://doi.org/10.1016/j.aspen.2019.07.013>. https://doi.org/10.1016/j.aspen.2019.07.013 doi:10.1016/j.aspen.2019.07.013 |
| spellingShingle | Q Science (General) QH Natural history QR Microbiology R Medicine Song, Sze Looi Yong, Hoi Sen Suana, I. Wayan Lim, Phaik Eem Eamsobhana, Praphathip Complete mitochondrial genome of Dacus conopsoides (Insecta: Tephritidae) with tRNA gene duplication and molecular phylogeny of Dacini tribe |
| title | Complete mitochondrial genome of Dacus conopsoides (Insecta: Tephritidae) with tRNA gene duplication and molecular phylogeny of Dacini tribe |
| title_full | Complete mitochondrial genome of Dacus conopsoides (Insecta: Tephritidae) with tRNA gene duplication and molecular phylogeny of Dacini tribe |
| title_fullStr | Complete mitochondrial genome of Dacus conopsoides (Insecta: Tephritidae) with tRNA gene duplication and molecular phylogeny of Dacini tribe |
| title_full_unstemmed | Complete mitochondrial genome of Dacus conopsoides (Insecta: Tephritidae) with tRNA gene duplication and molecular phylogeny of Dacini tribe |
| title_short | Complete mitochondrial genome of Dacus conopsoides (Insecta: Tephritidae) with tRNA gene duplication and molecular phylogeny of Dacini tribe |
| title_sort | complete mitochondrial genome of dacus conopsoides (insecta: tephritidae) with trna gene duplication and molecular phylogeny of dacini tribe |
| topic | Q Science (General) QH Natural history QR Microbiology R Medicine |
| url | http://eprints.um.edu.my/23402/ https://doi.org/10.1016/j.aspen.2019.07.013 |
| url_provider | http://eprints.um.edu.my/ |