Complete mitochondrial genome of <i>Onychostoma leptura</i> and phylogenetic analysis of <i>Onychostoma</i>

Zhai, Dongdong; Xie, Zhonggui; Wang, Ying; Yu, Jixin; Chen, Yuanyuan; Xia, Ming; Liu, Hongyan; Xiong, Fei

doi:10.1080/23802359.2020.1772692

Cited by 4 publications

(6 citation statements)

References 5 publications

(5 reference statements)

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“…The present study strongly supported that some species of Acrossocheilus, Onychostoma and F. brevifilis belong to the monophyletic group (Clade III), including A. monticola, A. yunnanensis, O. rarum, O. alticorpus and F. brevifilis. Interestingly, our results corroborate the previous finding that O. rarum is the sister group of O. alticorpus (Hoang et al 2015;Song et al 2018;Zhang et al 2018), but Zhai et al (2020) suggested that O. rarum appeared to be more closely related with O. barbatulum and O. barbatum. We suggested that the specimens of O. rarum (NC022869.1) were also misidentified.…”

Section: Molecular Phylogeny Of Onychostomasupporting

confidence: 92%

“…Zhang et al (2018) also showed that the eight species of Onychostoma cluster into three separate lineages based on the whole mitochondrial genome sequence. However, similar research in Zhai et al (2020) only identified two lineages among nine species of Onychostoma with the same molecular markers. Interestingly, Zhang et al (2018) proposed that O. rarum (Lin, 1933) was the sister group of O. alticorpus (Oshima, 1920), but recently another study showed that O. rarum seems to be more closely related to O. barbatulum (Pellegrin, 1908) and O. barbatum (Lin, 1931) (Zhai et al 2020).…”

Section: Introductionmentioning

confidence: 75%

“…However, similar research in Zhai et al (2020) only identified two lineages among nine species of Onychostoma with the same molecular markers. Interestingly, Zhang et al (2018) proposed that O. rarum (Lin, 1933) was the sister group of O. alticorpus (Oshima, 1920), but recently another study showed that O. rarum seems to be more closely related to O. barbatulum (Pellegrin, 1908) and O. barbatum (Lin, 1931) (Zhai et al 2020). In the previous studies, the classification of the three groups was inconsistent (Yang et al 2015;Zheng et al 2016;.…”

Section: Introductionmentioning

confidence: 75%

“…Previous studies suggest an inclusive phylogenetic clade including species from Acrossocheilus, Onychostoma, and Folifer brevifilis based on molecular markers (Yang et al 2015;Zheng et al 2016). Although a previous study has characterized the complete mitochondrial genome of O. lepturum (Zhai et al 2020), the genome annotation, comparative analysis and the phylogenetic relationships of Onychostoma remain poorly understood due to the limited genomic data used. Our approach better informs the conservation of this species; thus, we determined the complete mitochondrial genome of O. lepturum based on next-generation sequencing data and assessed its phylogenetic relationships with another 11 available mitogenomes in the genus Onychostoma and 16 available mitogenomes in the genus Acrossocheilus and F. brevifilis, with an available mitogenome in Spinibarbus hollandi (Oshima, 1919) used as an outgroup.…”

Section: Introductionmentioning

confidence: 99%

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Complete mitochondrial genome of the freshwater fish Onychostoma lepturum (Teleostei, Cyprinidae): genome characterization and phylogenetic analysis

Wang¹,

Lin²,

Liang³

et al. 2020

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The cyprinid genus Onychostoma Günther, 1896 consists of 24 valid species distributed in Southeast Asia, including Taiwan, Hainan, mainland China and the Indochina region. In the present study, we determined the complete mitochondrial genome of O. lepturum, which is 16,598 bp in length, containing 13 protein-coding genes, two rRNA genes, 22 tRNA genes and a typical control region (D-loop). To verify the molecular phylogeny of the subfamily Acrossocheilinae, we provide new insights to better understand the taxonomic status of Acrossocheilus, Onychostoma and Folifer brevifilis. The phylogenetic trees presented three major clades based on the 13 protein-coding genes from 28 Acrossocheilinae species. Clades I and II represent the Onychostoma and Acrossocheilus groups, respectively. Species of Acrossocheilus, Onychostoma and F. brevifilis are included in Clade III, which is considered as an ancestral group. This work provides genomic variation information and improves our understanding of the Acrossocheilinae mitogenome, which will be most valuable in providing new insights for phylogenetic analysis and population genetics research.

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Section: Molecular Phylogeny Of Onychostomasupporting

confidence: 92%

Section: Introductionmentioning

confidence: 75%

Section: Introductionmentioning

confidence: 75%

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

Complete mitochondrial genome of the freshwater fish Onychostoma lepturum (Teleostei, Cyprinidae): genome characterization and phylogenetic analysis

Wang¹,

Lin²,

Liang³

et al. 2020

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“… 2018 ; Zhai et al. 2020 ). The initiation codon for all 13 PCGs was ATG except COI where it was GTG.…”

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confidence: 99%

The first complete mitogenome of Onychostoma ovale (Pellegrin & Chevey, 1936) with phylogenetic analyses

Luo

Chen

et al. 2022

Mitochondrial DNA Part B

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Onychostoma ovale (Pellegrin & Chevey, 1936) is an endemic cyprinid fish that is widely inhabited in southern China, Vietnam, and Laos. In the present study, we first reported the complete mitochondrial genome of O. ovale . The mitogenome contained 16,600 bp with AT content of 56.2% and comprised of 13 protein-coding genes, 22 transfer RNA genes, two ribosomal RNA genes, and one control region (D-loop). Phylogenetic analyses suggested that Onychostoma species formed two major clades and the subspecies of O. ovale had close relationship with O. rarum . The mitochondrial genome of O. ovale provided a key aid for population genetics and phylogenetic inferences of Onychostoma in future research.

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Genome assembly of M. spongiola and comparative genomics of the genus Morchella provide initial insights into taxonomy and adaptive evolution

Meng,

Xie,

et al. 2024

BMC Genomics

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Morchella spongiola is a highly prized mushroom for its delicious flavor and medical value and is one of the most flourishing, representative, and dominant macrofungi in the Qilian Mountains of the Qinghai-Tibet Plateau subkingdoms (QTPs). However, the understanding of M. spongiola remains largely unknown, and its taxonomy is ambiguous. In this study, we redescribed a unique species of M. spongiola, i.e., micromorphology, molecular data, genomics, and comparative genomics, and the historical biogeography of M. spongiola were estimated for 182 single-copy homologous genes. A high-quality chromosome-level reference genome of M. spongiola M12-10 was obtained by combining PacBio HiFi data and Illumina sequencing technologies; it was approximately 57.1 Mb (contig N50 of 18.14 Mb) and contained 9775 protein-coding genes. Comparative genome analysis revealed considerable conservation and unique characteristics between M. spongiola M12-10 and 32 other Morchella species. Molecular phylogenetic analysis indicated that M. spongiola M12-10 is similar to the M. prava/Mes-7 present in sandy soil near rivers, differentiating from black morels ~ 43.06 Mya (million years ago), and diverged from M. parva/Mes-7 at approximately 12.85 Mya (in the Miocene epoch), which is closely related to the geological activities in the QTPs (in the Neogene). Therefore, M. spongiola is a unique species rather than a synonym of M. vulgaris/Mes-5, which has a distinctive grey-brown sponge-like ascomata. This genome of M. spongiola M12-10 is the first published genome sequence of the species in the genus Morchella from the QTPs, which could aid future studies on functional gene identification, germplasm resource management, and molecular breeding efforts, as well as evolutionary studies on the Morchella taxon in the QTPs.

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Complete mitochondrial genome of Onychostoma leptura and phylogenetic analysis of Onychostoma

Cited by 4 publications

References 5 publications

Complete mitochondrial genome of the freshwater fish Onychostoma lepturum (Teleostei, Cyprinidae): genome characterization and phylogenetic analysis

Complete mitochondrial genome of the freshwater fish Onychostoma lepturum (Teleostei, Cyprinidae): genome characterization and phylogenetic analysis

The first complete mitogenome of Onychostoma ovale (Pellegrin & Chevey, 1936) with phylogenetic analyses

Genome assembly of M. spongiola and comparative genomics of the genus Morchella provide initial insights into taxonomy and adaptive evolution

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