The Entire Mitochondrial Genome of Macrophthalmus abbreviatus Reveals Insights into the Phylogeny and Gene Rearrangements of Brachyura

Xu, Xinyi; Wang, Qi; Wu, Qiong; Xu, Jiayan; Wang, Jie; Wang, Zhengfei

doi:10.1007/s10528-020-10025-8

Cited by 5 publications

(3 citation statements)

References 47 publications

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“…Here, the families Macrophthalmidae and Varunidae were grouped into one clade, and Mictyridae as basal group which supports the previous findings revealed in Wang et al and Zhang et al 9 , 33 . However, previous researchers revealed that Macrophthalmidae and Varunidae were grouped into one clade, then into another clade with Varunidae ((Macrophthalmidae + Varunidae) + Mictyridae) 38 , 39 , which was conflict with our results. The classification of Grapsoidea and Ocypodoidea has long been controversial.…”

Section: Resultscontrasting

confidence: 99%

The mitochondrial genome of Grapsus albolineatus (Decapoda: Brachyura: Grapsidae) and phylogenetic associations in Brachyura

Xia

Liu

et al. 2022

Sci Rep

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Complete mitochondrial genomes (mitogenomes) can provide useful information for phylogenetic relationships, gene rearrangement, and evolutionary traits. In this study, we determined the complete mitochondrial DNA sequence of the herbivorous crab Grapsus albolineatus. It is a typical metazoan mitochondrial genome. The total size is 15,583 bp, contains the entire set of 37 genes, and has an AT-rich region. Then, 23 of the 37 genes were encoded by the heavy (+) strand while 14 are encoded by the light (−) strand. Compared with the pan-crustacean ground pattern, two tRNA genes (tRNA-His and tRNA-Gln) were rearranged and the tandem duplication/random loss model was used to explain the observed gene rearrangements. The phylogenetic results showed that all Grapsidae crabs clustered together as a group. Furthermore, the monophyly of each family was well supported, with the exception of Menippidae. In general, the results obtained in this study will contribute to the better understanding of gene rearrangements in Grapsidae crab mitogenomes and provide new insights into the phylogeny of Brachyura.

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Section: Resultscontrasting

confidence: 99%

The mitochondrial genome of Grapsus albolineatus (Decapoda: Brachyura: Grapsidae) and phylogenetic associations in Brachyura

Xia

Liu

et al. 2022

Sci Rep

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“…In addition, we found the families Pilumnidae and Xanthidae have undergone different rearrangements, which provided key evidence of their evolutionary history. The difference in the MGOs of Xanthidae [ 43 ] and Pilumnidae also provided valuable independent support for the separation of Pilumnidae from Xanthidae, but the low number of published Pilumnidae mitochondrial studies made it difficult to explore the ancestral sequence of this family.…”

Section: Resultsmentioning

confidence: 99%

The Complete Mitochondrial Genome of Pilumnopeus Makianus (Brachyura: Pilumnidae), Novel Gene Rearrangements, and Phylogenetic Relationships of Brachyura

Duan

Dong

et al. 2022

Genes

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Pilumnopeus makianus is a crab that belongs to Pilumnidae, Brachyura. Although many recent studies have focused on the phylogeny of Brachyura, the internal relationships in this clade are far from settled. In this study, the complete mitogenome of P. makianus was sequenced and annotated for the first time. The length of the mitogenome is 15,863 bp, and includes 13 protein-coding genes (PCGs), 22 transfer RNA genes (tRNA), and 2 ribosomal RNA genes (rRNA). The mitogenome exhibits a high AT content (72.26%), with a negative AT-skew (−0.01) and a GC-skew (−0.256). In the mitogenome of P. makianus, all the tRNA genes are folded into the typical cloverleaf secondary structure, except trnS1 (TCT). A comparison with the ancestors of Brachyura reveals that gene rearrangement occurred in P. makianus. In addition, phylogenetic analyses based on thirteen PCGs indicated that P. makianus, Pilumnus vespertilio, and Echinoecus nipponicus clustered into a well-supported clade that supports the monophyly of the family Pilumnidae. These findings enabled a better understanding of phylogenetic relationships within Brachyura.

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“…The mitogenomes within metazoan are generally 14-20 kb in length, comprising two ribosomal RNA genes (12SrRNA and 16SrRNA), 22 transfer RNA genes (tRNAs), 13 protein-coding genes (PCGs), and 1 control region (CR, or D-loop region). Complete mitogenome sequences are usually utilized in phylogenetic research, comparative genomics, population genetics, and molecular evolution [3]. The important information provided by mitogenome data regarding sequences and genomic rearrangements, which are generally complex and diverse, partly reflects the evolution of animals [4].…”

Section: Introductionmentioning

confidence: 99%

Molecular Phylogeny and Evolution of the Tuerkayana (Decapoda: Brachyura: Gecarcinidae) Genus Based on Whole Mitochondrial Genome Sequences

Wang

Zheng

Zhao

et al. 2023

Biology

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Tuerkayana is of particular interest because it has been separated, in recent years, from Cardisoma and Discoplax but studies of its taxonomic status, especially from a whole mitochondrial genome perspective, have been lacking. In this study, the mitogenomes of four species (Tuerkayana magnum, Tuerkayana rotundum, Tuerkayana hirtipes, and Tuerkayana celeste) of Tuerkayana are sequenced and contrasted with other species in Brachyura for the first time. The phylogenetic tree of Brachyura, which includes 206 crab species (189 species of Brachyuran and 17 Anomura species) with a complete mitogenome, was constructed to evaluate the phylogenetic position of Tuerkayana and Gecarcinidae within Brachyuran, and explore the monophyly of Gecarcinidae. Furthermore, two single gene trees based on cox1 and 16SrRNA separately within interspecies of Gecarcinidae were reconstructed, providing molecular evidence for Tuerkayana and further clarifying the division of genera in Gecarcinidae. Based on the mitogenome dataset of 206 crabs, the branch-site model was utilized to explore selective pressure in individual codons with CodeML. The strong selective pressure shown in nad6 indicates that it may have played a significant role in the evolution of Gecarcinidae.

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The Entire Mitochondrial Genome of Macrophthalmus abbreviatus Reveals Insights into the Phylogeny and Gene Rearrangements of Brachyura

Cited by 5 publications

References 47 publications

The mitochondrial genome of Grapsus albolineatus (Decapoda: Brachyura: Grapsidae) and phylogenetic associations in Brachyura

The mitochondrial genome of Grapsus albolineatus (Decapoda: Brachyura: Grapsidae) and phylogenetic associations in Brachyura

The Complete Mitochondrial Genome of Pilumnopeus Makianus (Brachyura: Pilumnidae), Novel Gene Rearrangements, and Phylogenetic Relationships of Brachyura

Molecular Phylogeny and Evolution of the Tuerkayana (Decapoda: Brachyura: Gecarcinidae) Genus Based on Whole Mitochondrial Genome Sequences

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