The complete mitochondrial genome of Hemigrapsus sinensis (Brachyura, Grapsoidea, Varunidae) and its phylogenetic position within Grapsoidea

Jin, Xun; Guo, Xingle; Chen, Jian; Li, Jiasheng; Zhang, Shufei; Zheng, Sixu; Wang, Yunpeng; Peng, Ying; Zhang, Kun; Liu, Yifan; Liu, Bingjian

doi:10.1007/s13258-022-01319-9

Cited by 4 publications

(2 citation statements)

References 81 publications

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“…The calculation of non-synonymous substitutions (Ka) and synonymous substitutions (Ks) is crucial for constructing a phylogenetic tree and understanding the evolutionary dynamics of protein-coding genes (PCGs) in closely related species [ 27 , 28 ]. The Ka/Ks ratio is used to determine whether selective pressure acted on PCGs during evolution: Ka/Ks > 1, positive selection; Ka/Ks = 1, neutral selection; and Ka/Ks < 1, negative selection [ 29 , 30 ].…”

Section: Resultsmentioning

confidence: 99%

The Complete Mitochondrial Genome and Phylogenetic Analysis of the Freshwater Shellfish Novaculina chinensis (Bivalvia: Pharidae)

Zhou,

Song,

Zheng

et al. 2023

IJMS

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Razor clams, belonging to the Pharidae and Solenidae families, are ecologically and economically important; however, very little research has been conducted on the Pharidae family. The genus Novaculina is a marine-derived freshwater lineage, and Novaculina chinensis is a rare freshwater species of the Pharidae family. In order to understand the phylogenetic relationships of N. chinensis, we sequenced the mitochondrial genome of the genus Novaculina, which is 16,262 bp in length and consists of 12 protein-coding genes (PCGs), 22 transfer RNA genes (tRNAs), and 2 ribosomal RNA genes (rRNAs). The phylogenetic relationships of 69 Imparidentian mitochondrial genomes (mitogenomes) indicated that N. chineisis is closely related to Sinonovacula constricta of the order Adapedonta. Our study also found that the Ka/Ks ratios of 12 protein-coding genes in the Pharidae family are lower than one, indicating the occurrence of negative purification selection. Morphological observations of the siphons of N. chinensis, Novaculina myanmarensis, and Novaculina gangetica indicate that N. chinensis may be the ancestral clade of the genus Novaculina, which has not been proposed in previous studies. Our study provides useful molecular information on the phylogenetic and evolutionary relationships of Pharidae and also contributes to the conservation and management of the germplasm resources of N. chinensis.

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Section: Resultsmentioning

confidence: 99%

The Complete Mitochondrial Genome and Phylogenetic Analysis of the Freshwater Shellfish Novaculina chinensis (Bivalvia: Pharidae)

Zhou,

Song,

Zheng

et al. 2023

IJMS

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“… 2018 ), Hemigrapsus sinensis NC_065995.1 (Jin et al. 2023 ), Shinkaia crosnieri EU420129.1 (Yang and Yang 2008 ), Terrapotamon thungwa MW697087.1 (Yundaeng et al. 2022 ).…”

Section: Resultsmentioning

confidence: 99%

The complete mitochondrial genome of Allogalathea elegans (Adams & White, 1848) (Decapoda: Galatheidae)

Ruan

Cheng

Xuan

et al. 2023

Mitochondrial DNA Part B

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The genus Allogalathea belongs to the subfamily Galatheoidea of the family Galatheidae. Here, we report a mitogenome of Allogalathea elegans (Adams & White, 1848). In this study, we obtained the complete mitochondrial genome of Allogalathea elegans by sequencing, which was 16,263 bp in length. The mitogenome contained 37 genes, including the typical set of 13 protein-coding genes (PCGs), 22 transfer RNA (tRNA) genes, and 2 Ribosomal RNA (rRNA) genes. The nucleotides A, C, G, and T distribution was 36.40%, 19.44%, 9.09%, and 35.07%, respectively. The length of the total protein-coding genes was 11,172 bp, which accounts for 68.69% of the whole mitochondrial genome. The phylogenetic result generated by IQ-Tree based on 13 PGCs showed that the infraorder Anomura is monophyletic, and the infraorder Anomura is a sister group of the infraorder Glypheidea. The discovery of the complete mitochondrial genome of A. elegans would help to conduct in-depth research on the infraorder Anomura.

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The complete chloroplast genome sequence and phylogenetic relationship analysis of Eomecon chionantha, one species unique to China

Zhang,

Zhang

et al. 2024

J Plant Res

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The complete mitochondrial genome of Hemigrapsus sinensis (Brachyura, Grapsoidea, Varunidae) and its phylogenetic position within Grapsoidea

Cited by 4 publications

References 81 publications

The Complete Mitochondrial Genome and Phylogenetic Analysis of the Freshwater Shellfish Novaculina chinensis (Bivalvia: Pharidae)

The Complete Mitochondrial Genome and Phylogenetic Analysis of the Freshwater Shellfish Novaculina chinensis (Bivalvia: Pharidae)

The complete mitochondrial genome of Allogalathea elegans (Adams & White, 1848) (Decapoda: Galatheidae)

The complete chloroplast genome sequence and phylogenetic relationship analysis of Eomecon chionantha, one species unique to China

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