Evolutionary rates of and selective constraints on the mitochondrial genomes of Orthoptera insects with different wing types

Chang, Huihui; Qiu, Zhongying; Yuan, Hao; Wang, Xiaoyang; Li, Xuejuan; Sun, Haichun; Guo, Xiaoqiang; Lu, Yingchun; Feng, Xiaolei; Muhammad, Majid; Huang, Yuan

doi:10.1016/j.ympev.2020.106734

Cited by 57 publications

(64 citation statements)

References 64 publications

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“…Molecular results appear to confirm earlier suspicions that the subfamily is not monophyletic. Stenocatantops and Xenocatantops form a sister group, which was also confirmed by the other studies [48][49][50][51]. The remaining inconsistencies between mtOrt_tree and mtMet_tree, mtInv_tree and mtPan 2013 _tree are all concentrated on inter-generic and intra-generic relationships (Additional file 4: Figure S2).…”

Section: Phylogenetic Relationships Of Orthoptera Lineagessupporting

confidence: 80%

MtOrt: an empirical mitochondrial amino acid substitution model for evolutionary studies of Orthoptera insects

et al. 2020

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Background: Amino acid substitution models play an important role in inferring phylogenies from proteins. Although different amino acid substitution models have been proposed, only a few were estimated from mitochondrial protein sequences for specific taxa such as the mtArt model for Arthropoda. The increasing of mitochondrial genome data from broad Orthoptera taxa provides an opportunity to estimate the Orthopteraspecific mitochondrial amino acid empirical model. Results: We sequenced complete mitochondrial genomes of 54 Orthoptera species, and estimated an amino acid substitution model (named mtOrt) by maximum likelihood method based on the 283 complete mitochondrial genomes available currently. The results indicated that there are obvious differences between mtOrt and the existing models, and the new model can better fit the Orthoptera mitochondrial protein datasets. Moreover, topologies of trees constructed using mtOrt and existing models are frequently different. MtOrt does indeed have an impact on likelihood improvement as well as tree topologies. The comparisons between the topologies of trees constructed using mtOrt and existing models show that the new model outperforms the existing models in inferring phylogenies from Orthoptera mitochondrial protein data. Conclusions: The new mitochondrial amino acid substitution model of Orthoptera shows obvious differences from the existing models, and outperforms the existing models in inferring phylogenies from Orthoptera mitochondrial protein sequences.

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Section: Phylogenetic Relationships Of Orthoptera Lineagessupporting

confidence: 80%

MtOrt: an empirical mitochondrial amino acid substitution model for evolutionary studies of Orthoptera insects

et al. 2020

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“…Although Tonkinacris was involved in a few monographs on grasshopper taxonomy [7][8][9][10][11][12][13], and a few species of the genus were occasionally sampled in some molecular studies (S1 Table) [14][15][16][17][18][19][20][21][22], there was no revisionary research devoted to the genus based on morphological or molecular data. Tonkinacris usually had a closest relationship to the genera Sinopodisma [14,[16][17][18], Pedopodisma [23,24], Podisma [15], Fruhstorferiola [19][20][21] or Ognevia [22] in the molecular studies above-mentioned depending on the differences in sampling strategies. However, phylogenetic relationship within the genus Tonkinacris has never been explored until now.…”

Section: Introductionmentioning

confidence: 99%

Molecular phylogeny and species delimitation of the genus Tonkinacris (Orthoptera, Acrididae, Melanoplinae) from China

Wang

et al. 2021

PLoS ONE

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Tonkinacris is a small group in Acrididae. While a few species were occasionally sampled in some previous molecular studies, there is no revisionary research devoted to the genus. In this study, we explored the phylogeny of and the relationships among Chinese species of the genus Tonkinacris using the mitochondrial COI barcode and the complete sequences of ITS1 and ITS2 of the nuclear ribosomal DNA. The phylogeny was reconstructed in maximum likelihood and Bayesian inference frameworks, respectively. The overlap range between intraspecific variation and interspecific divergence was assessed via K2P distances. Species boundaries were delimitated using phylogenetic species concept, NJ tree, K2P distance, the statistical parsimony network as well as the GMYC model. The results demonstrate that the Chinese Tonkinacris species is a monophyletic group and the phylogenetic relationship among them is (T. sinensis, (T. meridionalis, (T. decoratus, T. damingshanus))). While T. sinensis, T. meridionalis and T. decoratus were confirmed being good independent species strongly supported by both morphological and molecular evidences, the validity of T. damingshanus was not perfectly supported by molecular evidence in this study.

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“…The peptides encoded by nd4 constitute mitochondrial complexes I, which participate in oxidative phosphorylation (OXPHOS); the amino acid changes within nd4 also affect the efficiency of ATP synthesis [35]. Like the high-altitude environments of galliforms, aquatic environments are short of oxygen, which implies association between gene positive selection and adaptation to energy metabolism in aquatic environments [22,36]. While our study did not directly test the adaptation to aquatic environment, our results can inspire further investigation of aquatic adaptations of spider evolution.…”

Section: Discussionmentioning

confidence: 99%

The complete mitochondrial genome of the intertidal spider (Desis jiaxiangi) provides novel insights into the adaptive evolution of the mitogenome and the evolution of spiders

Fan

Wen

et al. 2021

BMC Ecol Evo

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Background Although almost all extant spider species live in terrestrial environments, a few species live fully submerged in freshwater or seawater. The intertidal spiders (genus Desis) built silk nests within coral crevices can survive submerged in high tides. The diving bell spider, Argyroneta aquatica, resides in a similar dynamic environment but exclusively in freshwater. Given the pivotal role played by mitochondria in supplying most energy for physiological activity via oxidative phosphorylation and the environment, herein we sequenced the complete mitogenome of Desis jiaxiangi to investigate the adaptive evolution of the aquatic spider mitogenomes and the evolution of spiders. Results We assembled a complete mitogenome of the intertidal spider Desis jiaxiangi and performed comparative mitochondrial analyses of data set comprising of Desis jiaxiangi and other 45 previously published spider mitogenome sequences, including that of Argyroneta aquatica. We found a unique transposition of trnL2 and trnN genes in Desis jiaxiangi. Our robust phylogenetic topology clearly deciphered the evolutionary relationships between Desis jiaxiangi and Argyroneta aquatica as well as other spiders. We dated the divergence of Desis jiaxiangi and Argyroneta aquatica to the late Cretaceous at ~ 98 Ma. Our selection analyses detected a positive selection signal in the nd4 gene of the aquatic branch comprising both Desis jiaxiangi and Argyroneta aquatica. Surprisingly, Pirata subpiraticus, Hypochilus thorelli, and Argyroneta aquatica each had a higher Ka/Ks value in the 13 PCGs dataset among 46 taxa with complete mitogenomes, and these three species also showed positive selection signal in the nd6 gene. Conclusions Our finding of the unique transposition of trnL2 and trnN genes indicates that these genes may have experienced rearrangements in the history of intertidal spider evolution. The positive selection signals in the nd4 and nd6 genes might enable a better understanding of the spider metabolic adaptations in relation to different environments. Our construction of a novel mitogenome for the intertidal spider thus sheds light on the evolutionary history of spiders and their mitogenomes.

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Evolutionary rates of and selective constraints on the mitochondrial genomes of Orthoptera insects with different wing types

Cited by 57 publications

References 64 publications

MtOrt: an empirical mitochondrial amino acid substitution model for evolutionary studies of Orthoptera insects

MtOrt: an empirical mitochondrial amino acid substitution model for evolutionary studies of Orthoptera insects

Molecular phylogeny and species delimitation of the genus Tonkinacris (Orthoptera, Acrididae, Melanoplinae) from China

The complete mitochondrial genome of the intertidal spider (Desis jiaxiangi) provides novel insights into the adaptive evolution of the mitogenome and the evolution of spiders

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