Novel tRNA gene rearrangements in the mitochondrial genome of Camarochiloides weiweii (Hemiptera: Pachynomidae)

Chen, Zhuo; Liu, Yingqi; Wu, Yunfei; Song, Fan; Cai, Wanzhi; Li, Hu

doi:10.1016/j.ijbiomac.2020.10.051

Cited by 14 publications

(18 citation statements)

References 66 publications

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“…Within hemipteran mitogenomes, gene rearrangements are mainly found in Sternorrhyncha (Aleyrodidae [11], Aphididae [12], Coccoidea [13]), Auchenorrhyncha (Delphacidae [14]), and Heteroptera (Enicocephalidae [15], Reduviidae [16][17][18], Pachynomidae [19], Aradidae [20], Pyrrhocoroidea [21]). Among which, Heteroptera (especially Reduviidae) display diverse rearrangement types including gene translocation, gene duplication, and gene loss.…”

Section: Introductionmentioning

confidence: 99%

Mitochondrial Genomes from Two Specialized Subfamilies of Reduviidae (Insecta: Hemiptera) Reveal Novel Gene Rearrangements of True Bugs

Xie

2021

Genes

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Reduviidae, a hyper-diverse family, comprise 25 subfamilies with nearly 7000 species and include many natural enemies of crop pests and vectors of human disease. To date, 75 mitochondrial genomes (mitogenomes) of assassin bugs from only 11 subfamilies have been reported. The limited sampling of mitogenome at higher categories hinders a deep understanding of mitogenome evolution and reduviid phylogeny. In this study, the first mitogenomes of Holoptilinae (Ptilocnemus lemur) and Emesinae (Ischnobaenella hainana) were sequenced. Two novel gene orders were detected in the newly sequenced mitogenomes. Combined 421 heteropteran mitogenomes, we identified 21 different gene orders and six gene rearrangement units located in three gene blocks. Comparative analyses of the diversity of gene order for each unit reveal that the tRNA gene cluster trnI-trnQ-trnM is the hotspot of heteropteran gene rearrangement. Furthermore, combined analyses of the gene rearrangement richness of each unit and the whole mitogenome among heteropteran lineages confirm Reduviidae as a ‘hot-spot group’ of gene rearrangement in Heteroptera. The phylogenetic analyses corroborate the current view of phylogenetic relationships between basal groups of Reduviidae with high support values. Our study provides deeper insights into the evolution of mitochondrial gene arrangement in Heteroptera and the early divergence of reduviids.

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Section: Introductionmentioning

confidence: 99%

Mitochondrial Genomes from Two Specialized Subfamilies of Reduviidae (Insecta: Hemiptera) Reveal Novel Gene Rearrangements of True Bugs

Xie

2021

Genes

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“…The mitochondrial genome of insects, which is characterized by low molecular weight, simple structure, maternal inheritance, and rapid evolutionary rate [ 11 , 12 , 13 , 14 , 15 ], is widely used to study insect phylogeny and population inheritance [ 16 , 17 , 18 ]. With the development of DNA sequencing technology, the mitochondrial genomes of more and more insect species are being sequenced [ 19 , 20 , 21 ]. Nevertheless, data on the mitochondrial genomes of bark beetles remain limited.…”

Section: Introductionmentioning

confidence: 99%

Comparative Analysis of Eight Mitogenomes of Bark Beetles and Their Phylogenetic Implications

Fang

Shi

et al. 2021

Insects

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Many bark beetles of the subfamily Scolytinae are the most economically important insect pests of coniferous forests worldwide. In this study, we sequenced the mitochondrial genomes of eight bark beetle species, including Dendroctonus micans, Orthotomicus erosus, Polygraphus poligraphus, Dryocoetes hectographus, Ips nitidus, Ips typographus, Ips subelongatus, and Ips hauseri, to examine their structural characteristics and determine their phylogenetic relationships. We also used previously published mitochondrial genome sequence data from other Scolytinae species to identify and localize the eight species studied within the bark beetle phylogeny. Their gene arrangement matched the presumed ancestral pattern of these bark beetles. Start and stop codon usage, amino acid abundance, and the relative codon usage frequencies were conserved among bark beetles. Genetic distances between species ranged from 0.037 to 0.418, and evolutionary rates of protein-coding genes ranged from 0.07 for COI to 0.69 for ND2. Our results shed light on the phylogenetic relationships and taxonomic status of several bark beetles in the subfamily Scolytinae and highlight the need for further sequencing analyses and taxonomic revisions in additional bark beetle species.

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“…The gene order and orientation of the 6 mitogenomes are identical to the typical insect mitogenomes [ 2 , 18 ]. Although mitochondrial gene rearrangements have been reported in several orders of Insecta [ 18 , 72 , 73 , 74 ], these events are rather rarely documented in Diptera, which have only been discovered in the mosquitos (Culicidae) [ 75 ] and the gall midges (Cecidomyiidae) [ 76 ]. Therefore, the mitogenomes of rust flies appear to be conserved and to retain the putative ancestral arrangements [ 18 , 21 ].…”

Section: Resultsmentioning

confidence: 99%

“…The non-standard start codon TTG for ND1 has also been found in several other mitogenomes of Diptera [ 82 , 83 ]. Each PCG is terminated with TAA or TAG as stop codons, or with a single T residue as an incomplete stop codon, which has been noticed in many other insect mitogenomes [ 19 , 21 , 72 ]. The incomplete stop codon is presumed to be filled by polyadenylation during the maturation of mRNA [ 84 ].…”

Section: Resultsmentioning

confidence: 99%

“…The tRNAs exhibit high A + T content (77.3–80.1%), positive AT-skew and negative GC-skew ( Table 2 ). All of tRNAs can be folded into the typical clover-leaf secondary structure except trnS1 , which lacks the dihydrouridine (DHU) arm ( Figure S2 ) as in many other insects [ 18 , 72 , 85 ]. Most arms of the tRNAs were formed by classical Watson-Crick base pairing, with 3 kinds of non-classical base pairing (G-T match, T-T match and A-A match) were found ( Figure S2 ).…”

Section: Resultsmentioning

confidence: 99%

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Mitochondrial Genomes Provide New Phylogenetic and Evolutionary Insights into Psilidae (Diptera: Brachycera)

Zhou

Yang

2022

Insects

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Psilidae (Diptera: Brachycera) is a moderate-sized family currently placed in the superfamily Diopsoidea and contains some destructive agricultural and forestry pests. The systematic position and intrafamilial classification of rust flies are in need of further study, and the available molecular data of Psilidae are still limited. In this study, we present the mitochondrial genomes of 6 Psilidae species (Chamaepsilatestudinaria Wang and Yang, Chyliza bambusae Wang and Yang, Chy. chikuni Wang, Loxocera lunata Wang and Yang, L. planivena Wang and Yang and L. sinica Wang and Yang). Comparative analyses show a conserved genome structure, in terms of gene composition and arrangement, and a highly Adenine plus Thymine biased nucleotide composition of the 6 psilid mitogenomes. Mitochondrial evolutionary rates vary among the 6 species, with species of Chylizinae exhibiting a slower average rate than species of Psilinae. The length, the nucleotide composition, and the copy number of repeat units of the control region are variable among the 6 species, which may offer useful information for phylogenetic and evolutionary studies of Psilidae. Phylogenetic analyses based on 4 mitogenomic datasets (AA, PCG, PCG12RNA, and PCGRNA) support the monophyly of Psilidae, and the sister relationship between Chylizinae and Psilinae, while Diopsoidea is suggested to be non-monophyletic. Our study enlightens the future application of mitogenomic data in the phylogenetic and evolutionary studies of Psilidae, based on denser taxon sampling.

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Novel tRNA gene rearrangements in the mitochondrial genome of Camarochiloides weiweii (Hemiptera: Pachynomidae)

Cited by 14 publications

References 66 publications

Mitochondrial Genomes from Two Specialized Subfamilies of Reduviidae (Insecta: Hemiptera) Reveal Novel Gene Rearrangements of True Bugs

Mitochondrial Genomes from Two Specialized Subfamilies of Reduviidae (Insecta: Hemiptera) Reveal Novel Gene Rearrangements of True Bugs

Comparative Analysis of Eight Mitogenomes of Bark Beetles and Their Phylogenetic Implications

Mitochondrial Genomes Provide New Phylogenetic and Evolutionary Insights into Psilidae (Diptera: Brachycera)

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