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New data on the mitochondrial genome of the winter crane fly (Diptera: Trichoceridae) with phylogenetic analysis.

ABSTRACT: The family Trichoceridae is a small group in Nematocera (Diptera) with 157 known species in the world. In this study, we report a complete mitochondrial genome sequence of a Trichoceridae species, which is a circular molecule of 16,094 bp with 13 protein-coding genes (PCGs), 22 transfer RNA genes (tRNAs), two ribosomal RNA genes (rRNAs), and a 1063 bp long non-coding region (control region). Eight gene overlaps ranging from 1 to 8 bp in length and 16 small non-coding intergenic spacers ranging from 1 to 77 bp in length are found in the mitochondrial genome. The canonical start codons (ATN) for invertebrate mitochondrial genomes are found in 11 PCGs, except for COI which uses TTG and ND5 uses GTG. Stop codons of 12 PCGs are invariably complete TAA and TAG, while COII ends with a single thymine stop codon. Twenty-two tRNAs ranges from 64 bp to 72 bp, and the rRNAs are determined to be 1326 bp in length for lrRNA and 788 bp in length for srRNA. Phylogenetic analysis reveals that the family Trichoceridae is a sister-group to the remaining Tipulomorpha, and the relationship between the other families is Pediciidae + (Limoniidae + (Cylindrotomidae + Tipulidae)).

SUBMITTER: Ci T

PROVIDER: S-EPMC7928041 | biostudies-literature |

REPOSITORIES: biostudies-literature

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Mitochondrial genome sequences of Nematocera (lower Diptera): evidence of rearrangement following a complete genome duplication in a winter crane fly.

Project description:The complete mitochondrial DNA sequences of eight representatives of lower Diptera, suborder Nematocera, along with nearly complete sequences from two other species, are presented. These taxa represent eight families not previously represented by complete mitochondrial DNA sequences. Most of the sequences retain the ancestral dipteran mitochondrial gene arrangement, while one sequence, that of the midge Arachnocampa flava (family Keroplatidae), has an inversion of the trnE gene. The most unusual result is the extensive rearrangement of the mitochondrial genome of a winter crane fly, Paracladura trichoptera (family Trichocera). The pattern of rearrangement indicates that the mechanism of rearrangement involved a tandem duplication of the entire mitochondrial genome, followed by random and nonrandom loss of one copy of each gene. Another winter crane fly retains the ancestral diperan gene arrangement. A preliminary mitochondrial phylogeny of the Diptera is also presented.

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Characterization of the complete mitochondrial genome of the snow crane-fly Chionea crassipes gracilistyla (Diptera, Tipuloidea, Limoniidae) with phylogenetic analysis.

Project description:The genus Chionea Dalman, 1816 is a peculiar group of crane flies with extremely short wings. In this study, we report the first complete mitochondrial (mt) genome sequence of the genus Chionea, which is a circular molecule of 15,775 bp with an AT content of 76.9% and contains 13 protein-coding genes, 22 tRNA genes, 2 rRNA genes, and a long non-coding region. Phylogenetic analysis revealed that the Pediciidae was sister-group to the remaining Tipuloidea and strongly supported the sister-group relationship between Cylindrotomidae and Tipulidae.

| S-EPMC7706658 | biostudies-literature

Tipula (Vestiplex) butvilai sp. nov., a new crane fly (Diptera, Tipulidae) from Yunnan, China.

Project description:A new crane fly, Tipula (Vestiplex) butvilaisp. nov., is described and illustrated based on new material collected in the Nu Jiang Valley of Yunnan Province, China. The hypopygium for the most closely related species, Tipula (Vestiplex) testata Alexander, 1935, is also illustrated. A key is provided to distinguish males of the new species from those of other species in the T. (V.) bicornigera Alexander, 1938 species group.

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Sequence analysis of mitochondrial genome of the false and phantom crane-fly Ptychoptera qinggouensis Kang, Yao and Yang, 2013 (Diptera, Ptychopteridae).

Project description:The genus Ptychoptera Meigen, 1803 is the largest genus of the family Ptychopteridae with 78 known species. In this study, we report a nearly complete mitochondrial (mt) genome of this genus, which is a circular molecule of more than 15,028 bp. The mt genome contains 13 protein-coding genes, 22 tRNA genes, 2 rRNA genes and a non-coding region. The overall base composition is A (38.1%), T (36.7%), C (14.9%), and G (10.4%), with an AT content of 74.8%. The AT content of N-strand genes (75.7%) is higher than that of the J-strand genes (71.7%). Phylogenetic analysis reveals that the monophyly of Ptychopteridae, Bibiomorpha, Tipulomorpha and Brachycera are strongly supported, and the sister group relationship between Tanyderidae and Ptychopteridae is not supported.

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A new species of Elephantomyia crane fly (Diptera, Limoniidae) from Jeju Island, South Korea.

Project description:A new species of crane fly (Diptera, Limoniidae), Elephantomyia (Elephantomyia) hallasana Podenas & Podeniene, sp. nov., from Jeju Island, South Korea is described. Adult and larval characters are illustrated. Elephantomyia (E.) hallasanasp. nov. is the only species of the genus Elephantomyia Osten Sacken, 1860 recorded from Jeju Island, South Korea. Habitat, elevation range, and seasonality data are presented. Distributional notes on E. subterminalis Alexander, 1954 in the Far East of Russia (Khabarovskiy and Primorskiy regions) are discussed. An identification key for all Eastern Palaearctic species of subgenus E. (Elephantomyia) is presented.

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A crane fly of the genus Gynoplistia Macquart (Diptera, Limoniidae) from the early Miocene of New Zealand.

Project description:The first fossil limoniid fly from the Miocene Fossil-Lagerstätte of Foulden Maar in New Zealand is described on the basis of an isolated well-preserved wing. The specimen is tentatively attributed to a new species Gynoplistiafouldensensissp. nov. in the large extant genus Gynoplistia, which is well diversified in the country. It is the second fossil record of this genus, the first one being an isolated wing from the Cretaceous Weald Clay Formation in the United Kingdom.

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Complete mitochondrial genome of the black-winged fly, Felderimyia fuscipennis (Diptera: Tephritidae) and its phylogenetic relationship within family Tephritidae.

Project description:The black-winged fly, Felderimyia fuscipennis (Diptera: Tephritidae), is an insect pest of bamboo shoot, mainly distributed in Thailand, Malaysia and Yunnan Province and Guangxi Autonomous Region, China. The complete sequence of the mitogenome of F. fuscipennis has been determined in this study. The whole mitogenome sequence is 16,536 bp in length, which totally contains 13 protein-coding genes (PCGs), 2 rRNA genes, 22 tRNA genes, and a non-coding region (putative control region, CR). The phylogeny indicates that F. fuscipennis of subfamily Trypetinae was monophyletic and clearly separated from both Dacinae and Tephritinae with high bootstrap value supported.

| S-EPMC7594873 | biostudies-literature

Complete mitochondrial genome of the bamboo-shoot fruit fly, Acrotaeniostola dissimilis (Diptera: Tephritidae) and its phylogenetic relationship within family Tephritidae.

Project description:Acrotaeniostola dissimilis (Diptera: Tephritidae) is an insect pest of bamboo shoot and distributed in the Yunnan and Sichuan Provinces, Southwest China. Complete mitogenome sequence has been determined in this study. The circular genome is 15384 bp long and contains a standard gene complement, that is, the large and small ribosomal RNA subunits, 22 transfer RNA genes, 13 genes encoding mitochondrial proteins, and a non-coding A + T-rich control region. The phylogeny showed that A. dissimilis in tribe Gastrozonini was a monophyletic branch and clearly separated from both tribe Dacini and tribe Ceratitidini with high bootstrap value supported.

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Complete mitochondrial genome of the pumpkin fruit fly, Bactrocera depressa (Diptera: Tephritidae).

Project description:In this study, we sequenced the complete mitochondrial genome (mitogenome) of the pumpkin fruit fly, Bactrocera depressa (Diptera: Tephritidae), which is an economically damaging pest of pumpkin and turban squash. The 15,832-bp-long complete mitogenome of the species consists of a typical set of genes, with an arrangement typical of insects. Of the 13 protein-coding genes (PCGs), 12 have a typical ATN start codon, whereas the COI gene begins with TCG, which has been identified as the start codon for all Bactrocera COI genes. The 1004-bp A?+?T-rich region of B. depressa is the third longest, after B. minax and B. scutellata, of the Bactrocera species for which the whole mitogenome has been sequenced. Phylogenetic analysis using the 13 PCGs of Bactrocera species indicated that B. depressa is a sister to the sister group containing B. tau and B. cucurbitae with the highest nodal support (Bayesian posterior probability =1.0).

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

Project description: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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