The complete mitochondrial genome and phylogenetic analysis of <i>Lepidozona coreanica</i> (Reeve, 1847)

Sun, Dongfa; Lin, Ziyu; Teng, Xiaochun; Li, Xu; Qian, Lili; Yu, Xinyue; Wu, Huiting; Wang, Ziyi; Jin, Liming; Liu, Xiumei; Wang, Lijun; Qu, Jiangyong; Wang, Xumin; Xing, Zhikai

doi:10.1080/23802359.2023.2183723

Cited by 2 publications

(1 citation statement)

References 15 publications

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“…Thus, our work joins other phylogenetic studies among closely related species ( e.g. , Zhang et al, 2021 ; Zawal et al, 2022 ; Sun et al, 2023 ) where the use of whole mitogenomes instead of partitioning yields better results by preventing the addition of unnecessary complexity and bias in our analyses, while providing a greater amount of information for inference ( Duchêne et al, 2011 ).…”

Section: Discussionmentioning

confidence: 55%

Time-calibrated phylogeny and full mitogenome sequence of the Galapagos sea lion (Zalophus wollebaeki) from scat DNA

Asadobay,

Urquía,

Künzel

et al. 2023

PeerJ

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Background The Galapagos sea lion, Zalophus wollebaeki, is an endemic and endangered otariid, which is considered as a sentinel species of ecosystem dynamics in the Galapagos archipelago. Mitochondrial DNA is an important tool in phylogenetic and population genetic inference. In this work we use Illumina sequencing to complement the mitogenomic resources for Zalophus genus—the other two species employed Sanger sequencing—by a complete mitochondrial genome and a molecular clock of this species, which is not present in any case. Materials and Methods We used DNA obtained from a fresh scat sample of a Galapagos sea lion and shotgun-sequenced it on the Illumina NextSeq platform. The obtained raw reads were processed using the GetOrganelle software to filter the mitochondrial Zalophus DNA reads (∼16% survive the filtration), assemble them, and set up a molecular clock. Results From the obtained 3,511,116 raw reads, we were able to assemble a full mitogenome of a length of 16,676 bp, consisting of 13 protein-coding genes (PCGs), 22 transfer RNAs (tRNA), and two ribosomal RNAs (rRNA). A time-calibrated phylogeny confirmed the phylogenetic position of Z. wollebaeki in a clade with Z. californianus, and Z. japonicus, and sister to Z. californianus; as well as establishing the divergence time for Z. wollebaeki 0.65 million years ago. Our study illustrates the possibility of seamlessly sequencing full mitochondrial genomes from fresh scat samples of marine mammals.

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Section: Discussionmentioning

confidence: 55%

Time-calibrated phylogeny and full mitogenome sequence of the Galapagos sea lion (Zalophus wollebaeki) from scat DNA

Asadobay,

Urquía,

Künzel

et al. 2023

PeerJ

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Complete mitochondrial genome of Acanthochitona defilippii (Polyplacophora: Chitonida) from South Korea

Kim,

Shin,

Kim

et al. 2024

Mitochondrial DNA Part B

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The chiton (Polyplacophora) occupies a significant position in molluscan evolutionary history as one of the most primitive groups within the phylum Mollusca. Acanthochitona defilippii (Tapparone-Canefri 1874) (Chitonida: Acanthochitonidae) is a commonly found intertidal chiton species in South Korea. In this study, we characterized the complete mitochondrial genome of A. defilippii (14,999 bp long), comprising 13 protein-coding genes (PCGs), 22 transfer RNA genes, two ribosomal RNA genes, and an A + T rich region (166 bp). The base composition is as follows: 31.82% for A, 11.63% for C, 16.69% for G, and 39.86% for T. We reconstructed a maximum likelihood (ML) tree to elucidate phylogenetic relationships among the eight chitonid families using the nucleotide sequences of all PCGs. The ML tree revealed that A. defilippii clustered with Acanthochitona avicula (BP 100) within the family Acanthochitonidae. Acanthochitonidae formed a sister group with Mopaliidae. The results could provide a valuable understanding the phylogenetic relationships of chitonid species.

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The complete mitochondrial genome and phylogenetic analysis of Lepidozona coreanica (Reeve, 1847)

Cited by 2 publications

References 15 publications

Time-calibrated phylogeny and full mitogenome sequence of the Galapagos sea lion (Zalophus wollebaeki) from scat DNA

Time-calibrated phylogeny and full mitogenome sequence of the Galapagos sea lion (Zalophus wollebaeki) from scat DNA

Complete mitochondrial genome of Acanthochitona defilippii (Polyplacophora: Chitonida) from South Korea

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