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Li K, Yu SW, Hu H, Feng YF, Storey KB, Ma Y, Zhang JY, Yu DN. The Phylogenetic Relationship of Lamiinae (Coleoptera: Cerambycidae) Using Mitochondrial Genomes. Genes (Basel) 2023; 15:13. [PMID: 38275595 PMCID: PMC10815127 DOI: 10.3390/genes15010013] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2023] [Revised: 12/15/2023] [Accepted: 12/18/2023] [Indexed: 01/27/2024] Open
Abstract
Lamiinae is the largest subfamily of the Cerambycidae (longhorn beetles), with approximately 21,863 described species. Previous phylogenetic studies of Lamiinae showed that this subfamily was monophyletic, but the relationship between the tribes of Lamiinae is still controversial. Partial molecular data and species morphological characteristics are not sufficient to resolve species phylogenetic studies perfectly. At the same time, the full mitochondrial genome contains more comprehensive genetic data. Benefiting from the development of next-generation sequencing (NGS), mitochondrial genomes can be easily acquired and used as reliable molecular markers to investigate phylogenetic relationships within Cerambycidae. Using NGS technology, we obtained 11 mitochondrial genome sequences of Lamiinae species. Based on this newly generated mitochondrial genome dataset matrix, we reconstructed the phylogeny of Lamiinae. The Bayesian Inference and Maximum Likelihood analyses strongly support the monophyly of four tribes (Lamiini, Batocerini, Mesosini, and Saperdini), whereas the tribe Acanthocinini was identified as paraphyletic. Other mitochondrial structural features were also observed: the start codon in the nad1 gene of all 11 mitochondrial genomes is TTG; 17-22 bp intergenic spacers (IGS) with a 'TACTA' motif were found between trnS2 and nad1. Moreover, two long IGS were found in Mesosa myops and Batocera sp. Tandem repeats were found in the IGS of Batocera sp.
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Affiliation(s)
- Ke Li
- College of Life Science, Zhejiang Normal University, Jinhua 321004, China
| | - Sheng-Wu Yu
- Longquan Protection Center of Qianjiangyuan-Baishanzu National Park, Lishui 323700, China
| | - Hao Hu
- College of Life Science, Zhejiang Normal University, Jinhua 321004, China
| | - Yu-Feng Feng
- College of Life Science, Zhejiang Normal University, Jinhua 321004, China
| | - Kenneth B. Storey
- Department of Biology, Carleton University, Ottawa, ON K1S 5B6, Canada
| | - Yue Ma
- College of Life Science, Zhejiang Normal University, Jinhua 321004, China
- Key Lab of Wildlife Biotechnology, Conservation and Utilization of Zhejiang Province, Zhejiang Normal University, Jinhua 321004, China
| | - Jia-Yong Zhang
- College of Life Science, Zhejiang Normal University, Jinhua 321004, China
- Key Lab of Wildlife Biotechnology, Conservation and Utilization of Zhejiang Province, Zhejiang Normal University, Jinhua 321004, China
| | - Dan-Na Yu
- College of Life Science, Zhejiang Normal University, Jinhua 321004, China
- Key Lab of Wildlife Biotechnology, Conservation and Utilization of Zhejiang Province, Zhejiang Normal University, Jinhua 321004, China
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Xu M, Zhou S, Wan X. Phylogenetic Implication of Large Intergenic Spacers: Insights from a Mitogenomic Comparison of Prosopocoilus Stag Beetles (Coleoptera: Lucanidae). Animals (Basel) 2022; 12:ani12131595. [PMID: 35804495 PMCID: PMC9264858 DOI: 10.3390/ani12131595] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2022] [Revised: 06/12/2022] [Accepted: 06/18/2022] [Indexed: 11/16/2022] Open
Abstract
Simple Summary Insect mitochondrial genomes (mitogenomes) show high diversity in some lineages. In the mitogenome of some Coleoptera species, a large intergenic spacer (IGS) has been identified. However, very little is known about mitogenomes of lucanid beetles. In this work, to provide further insight into the phylogenic relationships among species in lucanid beetles (genus Prosopocoilus), two Prosopocoilus species (Prosopocoilus castaneus and Prosopocoilus laterotarsus) were newly sequenced and comparatively analyzed. Significantly, the two newly sequenced Prosopocoilus species contained a large IGS located between trnI and trnQ. Our phylogenomic analyses showed that P. castaneus and P. laterotarsus were clustered in a clade with typical Prosopocoilus species (Prosopocoilus confucius, Prosopocoilus blanchardi, and Prosopocoilusastacoides). These results provide valuable data for the future study of the phylogenetic relationships in this genus. Abstract To explore the characteristics of mitogenomes and discuss the phylogenetic relationships within the genus Prosopocoilus, the mitogenomes of two species (P. castaneus and P. laterotarsus) were newly sequenced and comparatively analyzed. The arrangement of the mitogenome in these two lucanid beetles was the same as that in the inferred ancestral insect, and the nucleotide composition was highly biased towards A + T as in other lucanids. The evolutionary rates of 13 protein-coding genes (PCGs) suggested that their evolution was based on purifying selection. Notably, we found evidence of the presence of a large IGS between trnI and trnQ genes, whose length varied from 375 bp (in P. castaneus) to 158 bp (in P. laterotarsus). Within the large IGS region, a short sequence (TAAAA) was found to be unique among these two species, providing insights into phylogenomic reconstruction. Phylogenetic analyses were performed using the maximum likelihood (IQ-TREE) and Bayesian (PhyloBayes) methods based on 13 protein-coding genes (PCGs) in nucleotides and amino acids (AA) from published mitogenomes (n = 29). The genus Prosopocoilus was found to constitute a distinct clade with high nodal support. Overall, our findings suggested that analysis of the characteristics of the large IGS (presence or absence, size, and location) in mitogenomes of the genus Prosopocoilus may be informative for the phylogenetic and taxonomic analyses and for evaluation of the genus Prosopocoilus, despite the dense sampling materials needed.
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Affiliation(s)
- Mengqiong Xu
- Department of Ecology, School of Resources and Environmental Engineering, Anhui University, Hefei 230601, China; (M.X.); (S.Z.)
- Anhui Province Key Laboratory of Wetland Ecosystem Protection and Restoration, Hefei 230601, China
| | - Shiju Zhou
- Department of Ecology, School of Resources and Environmental Engineering, Anhui University, Hefei 230601, China; (M.X.); (S.Z.)
- Anhui Province Key Laboratory of Wetland Ecosystem Protection and Restoration, Hefei 230601, China
| | - Xia Wan
- Department of Ecology, School of Resources and Environmental Engineering, Anhui University, Hefei 230601, China; (M.X.); (S.Z.)
- Anhui Province Key Laboratory of Wetland Ecosystem Protection and Restoration, Hefei 230601, China
- Correspondence: ; Tel.: +86-136-3709-1923
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Lee J, Park J, Xi H, Park J. Comprehensive Analyses of the Complete Mitochondrial Genome of Figulus binodulus (Coleoptera: Lucanidae). JOURNAL OF INSECT SCIENCE (ONLINE) 2020; 20:10. [PMID: 32976575 PMCID: PMC7583265 DOI: 10.1093/jisesa/ieaa090] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/16/2020] [Indexed: 05/06/2023]
Abstract
Figulus binodulus Waterhouse is a small stag beetle distributed in East Asia. We determined the first mitochondrial genome of F. binodulus of which is 16,261-bp long including 13 protein-coding genes, two ribosomal RNA genes, 22 transfer RNAs, and a single large noncoding region of 1,717 bp. Gene order of F. binodulus is identical to the ancestral insect mitochondrial gene order as in most other stag beetle species. All of 22 tRNAs could be shaped into typical clover-leaf structure except trnSer1. Comparative analyses of 21 Lucanidae mitochondrial genomes was conducted in aspect of their length and AT-GC ratio. Nucleotide diversities analyses provide that cox1 and cox2 in Lucanidae are less diverse than those of Scarabaeoidea. Fifty simple sequence repeats (SSRs) were identified on F. binodulus mitochondrial genome. Comparative analysis of SSRs among five mitochondrial genomes displayed similar trend along with SSR types. Figulus binodulus was sister to all other available family Lucanidae species in the phylogenetic tree.
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Affiliation(s)
- Jungmo Lee
- InfoBoss Inc., Ltd., Seolleung-ro, Gangnam-gu, Seoul, Republic of Korea
- InfoBoss Research Center, Seolleung-ro, Gangnam-gu, Seoul, Republic of Korea
| | - Jonghyun Park
- InfoBoss Inc., Ltd., Seolleung-ro, Gangnam-gu, Seoul, Republic of Korea
- InfoBoss Research Center, Seolleung-ro, Gangnam-gu, Seoul, Republic of Korea
| | - Hong Xi
- InfoBoss Inc., Ltd., Seolleung-ro, Gangnam-gu, Seoul, Republic of Korea
- InfoBoss Research Center, Seolleung-ro, Gangnam-gu, Seoul, Republic of Korea
| | - Jongsun Park
- InfoBoss Inc., Ltd., Seolleung-ro, Gangnam-gu, Seoul, Republic of Korea
- InfoBoss Research Center, Seolleung-ro, Gangnam-gu, Seoul, Republic of Korea
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Jeong JS, Kim MJ, Kim I. The mitochondrial genome of the dung beetle, Copris tripartitus, with mitogenomic comparisons within Scarabaeidae (Coleoptera). Int J Biol Macromol 2020; 144:874-891. [DOI: 10.1016/j.ijbiomac.2019.09.165] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2019] [Revised: 09/22/2019] [Accepted: 09/23/2019] [Indexed: 11/25/2022]
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Chen D, Liu J, Bartolozzi L, Wan X. The complete mitochondrial genome of stag beetle Lucanus cervus (Coleoptera: Lucanidae) and phylogenetic analysis. PeerJ 2019; 7:e8274. [PMID: 31875157 PMCID: PMC6925956 DOI: 10.7717/peerj.8274] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2019] [Accepted: 11/22/2019] [Indexed: 11/20/2022] Open
Abstract
Background The stag beetle Lucanus cervus (Coleoptera: Lucanidae) is widely distributed in Europe. Habitat loss and fragmentation has led to significant reductions in numbers of this species. In this study, we sequenced the complete mitochondrial genome of L. cervus and reconstructed phylogenetic relationships among Lucanidae using complete mitochondrial genome sequences. Methods Raw data sequences were generated by the next generation sequencing using Illumina platform from genomic DNA of L. cervus. The mitochondrial genome was assembled by IDBA and annotated by MITOS. The aligned sequences of mitochondrial genes were partitioned using PartitionFinder 2. Phylogenetic relationships among 19 stag beetle species were constructed using Maximum Likelihood (ML) method implemented in IQ-TREE web server and Bayesian method implemented in PhyloBayes MPI 1.5a. Three scarab beetles were used as outgroups. Results The complete mitochondrial genome of L. cervus is 20,109 bp in length, comprising 13 protein-coding genes, 22 transfer RNA genes, two ribosomal RNAs and a control region. The A + T content is 69.93% for the majority strand. All protein-coding genes start with the typical ATN initiation codons except for cox1, which uses AAT. Phylogenetic analyses based on ML and Bayesian methods shown consistent topologies among Lucanidae.
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Affiliation(s)
- Dan Chen
- School of Resources and Environmental Engineering, Anhui University, Hefei, Anhui, China
| | - Jing Liu
- School of Resources and Environmental Engineering, Anhui University, Hefei, Anhui, China
| | - Luca Bartolozzi
- Department of Entomology, Natural History Museum of the University of Florence, Zoological Section "La Specola", Natural History Museum of the University of Florence, Florence, Italy
| | - Xia Wan
- School of Resources and Environmental Engineering, Anhui University, Hefei, Anhui, China
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Wang LJ, Huang JP, Shiao SF, Ko HP, Sung CH. Characterisation of the complete mitochondrial genome of Lucanus chengyuani (Coleoptera: Lucanidae). Mitochondrial DNA B Resour 2019; 4:3460-3462. [PMID: 33366039 PMCID: PMC7707321 DOI: 10.1080/23802359.2019.1674703] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2019] [Accepted: 09/25/2019] [Indexed: 10/27/2022] Open
Abstract
We sequenced and assembled the complete mitochondrial genome of Lucanus chengyuani, from the Alishan, Chiayi County, Taiwan. The length of the complete mitogenome of L. chengyuani is 16,926 bp and the mitogenome contains 13 protein-coding, 22 tRNA, and 2 rDNA genes. Nucleotide compositions of the whole mitogenome of L. chengyuani are 38.37% for A, 27.96% for T, 23.03% for C, and 10.637% for G. The AT and GC skewness of mitogenome sequence are 0.157 and -0.368, showing the A-skew and C-skew. The reconstructed phylogenetic relationships of 9 Lucanidae species based on 13 mitochondrial protein-coding genes are highly supported. The clade including Neolucanus maximus and Odontolabis cuvera is sister to the rest of the stag beetle clades, which contains L. chengyuani and L. mazama. Mitogenomic data from this study will provide useful information for further studies for the population genetics, speciation, biogeography, and conservation of L. chengyuani in the future.
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Affiliation(s)
- Liang-Jong Wang
- Division of Forest Protection, Taiwan Forestry Research Institute, Taipei, Taiwan
| | - Jen-Pan Huang
- Biodiversity Research Center, Academia Sinica, Taipei, Taiwan
| | - Shiuh-Feng Shiao
- Department of Entomology, National Taiwan University, Taipei, Taiwan
| | | | - Chia-Hsuan Sung
- Planning and Information Division, Fisheries Research Institute, Keelung, Taiwan
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Park J, Kim MJ, Kim I. Complete mitochondrial genome of the leaf-rolling-weevil, Apoderus jekelii Roelofs, 1874 (Coleoptera: Attelabidae). Mitochondrial DNA B Resour 2019. [DOI: 10.1080/23802359.2019.1580161] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022] Open
Affiliation(s)
- Jinyoung Park
- Team of Specific Protected Area Research, National Institute of Ecology, Seocheon, Republic of Korea
| | - Min Jee Kim
- Department of Applied Biology, College of Agriculture and Life Sciences, Chonnam National University, Gwangju, Republic of Korea
| | - Iksoo Kim
- Department of Applied Biology, College of Agriculture and Life Sciences, Chonnam National University, Gwangju, Republic of Korea
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Yang W, Zhang Y, Feng S, Liu L, Li Z. The first complete mitochondrial genome of the Japanese beetle Popillia japonica (Coleoptera: Scarabaeidae) and its phylogenetic implications for the superfamily Scarabaeoidea. Int J Biol Macromol 2018; 118:1406-1413. [DOI: 10.1016/j.ijbiomac.2018.06.131] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2018] [Revised: 06/23/2018] [Accepted: 06/26/2018] [Indexed: 12/01/2022]
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Chen Y, Liu J, Cao Y, Zhou S, Wan X. Two new complete mitochondrial genomes of Dorcus stag beetles (Coleoptera, Lucanidae). Genes Genomics 2018; 40:873-880. [PMID: 30047116 DOI: 10.1007/s13258-018-0699-8] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2017] [Accepted: 04/20/2018] [Indexed: 10/17/2022]
Abstract
The systematics of Dorcus MacLeay has been a long-standing debate. Mitochondrial genomes were widely used to deeply understand the phylogeny of problematic taxa in virtue of their genetic importance and comprehensiveness. To provide more useful genetic data for resolving the systematic disputation of Dorcus stag beetles. The complete mitochondrial genomes of Dorcus hopei and Dorcus seguyi were obtained using the next generation sequencing. Characteristics of the two genomes are explicated through comparing their genome organization and base composition, protein-coding genes and codon usage, intergenic spacers and non-coding region, transfer and ribosomal RNA genes and control region. Phylogenetic relationships were reconstructed using Maximum likelihood and Bayesian inference analyses based on the concatenated nucleotide sequences of 13 PCGs from 9 stag beetles and 3 scarab beetles. The complete mitogenomes of D. hopei and D. seguyi was 16,026 bp/17,955 bp long, respectively. A tandem repeat with the length of 940 bp was presented in the A+T-rich region in D. hopei. An unexpected non-coding region of 332 bp was located between nad2 and trnW in D. seguyi. The phylogenetic analyses robustly supported that D. hopei formed a branch with the generic type of D. parallelipipedus. Whereas D. seguyi was not covered in the branch of (D. hopei + D. parallelipipedus), but was sister to them. The results indicated that D. hopei should be a good member of Dorcus MacLeay. The taxonomic status of D. seguyi remained to be studied furtherly.
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Affiliation(s)
- YongJing Chen
- Department of Ecology, School of Resources and Engineering, Anhui University, 111 Jiulong Road, Hefei, 230601, People's Republic of China
| | - Jing Liu
- Department of Ecology, School of Resources and Engineering, Anhui University, 111 Jiulong Road, Hefei, 230601, People's Republic of China
| | - YuYan Cao
- Department of Ecology, School of Resources and Engineering, Anhui University, 111 Jiulong Road, Hefei, 230601, People's Republic of China
| | - Shiju Zhou
- Department of Ecology, School of Resources and Engineering, Anhui University, 111 Jiulong Road, Hefei, 230601, People's Republic of China
| | - Xia Wan
- Department of Ecology, School of Resources and Engineering, Anhui University, 111 Jiulong Road, Hefei, 230601, People's Republic of China.
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Guo Q, Xu J, Dai X, Liao C, Long C. Complete mitochondrial genome of a leaf-mining beetle, Rhadinosa nigrocyanea (Coleoptera: Chrysomelidae) with phylogenetic consideration. MITOCHONDRIAL DNA PART B-RESOURCES 2017; 2:446-448. [PMID: 33473857 PMCID: PMC7799965 DOI: 10.1080/23802359.2017.1357443] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 12/05/2022]
Abstract
The complete circular mitochondrial genome (mitogenome) of Rhadinosa nigrocyanea was 17,965 bp in length, which contained 2 ribosomal RNA genes, 22 transfer RNAs, 13 protein-coding genes (PCGs) and 1 non-coding AT-rich region with the length of 3002 bp. All of the 22 tRNA genes displayed a typical clover-leaf structure, with the exception of tRNASer (TCT). 12 PCGs were initiated by ATN codons, except for ND1 started with TTG. Only six PCGs used the typical stop codon ‘TAA’ and ‘TGA’, while seven PCGs terminated with incomplete stop codons (TA or T). Phylogenetic analysis showed that R. nigrocyanea grouped with Cassidinae species, sister to Clytrinae + Cryptocephalinae.
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Affiliation(s)
- Qingyun Guo
- Leafminer Group, School of Life and Environmental Sciences, Gannan Normal University, Ganzhou, China
| | - Jiasheng Xu
- Leafminer Group, School of Life and Environmental Sciences, Gannan Normal University, Ganzhou, China
| | - Xiaohua Dai
- Leafminer Group, School of Life and Environmental Sciences, Gannan Normal University, Ganzhou, China.,National Navel-Orange Engineering Research Center, Ganzhou, China
| | - Chengqing Liao
- Leafminer Group, School of Life and Environmental Sciences, Gannan Normal University, Ganzhou, China
| | - Chengpeng Long
- Leafminer Group, School of Life and Environmental Sciences, Gannan Normal University, Ganzhou, China
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Yuan ML, Zhang QL, Zhang L, Guo ZL, Liu YJ, Shen YY, Shao R. High-level phylogeny of the Coleoptera inferred with mitochondrial genome sequences. Mol Phylogenet Evol 2016; 104:99-111. [DOI: 10.1016/j.ympev.2016.08.002] [Citation(s) in RCA: 63] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2015] [Revised: 07/26/2016] [Accepted: 08/02/2016] [Indexed: 01/03/2023]
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Niu FF, Zhu L, Wang S, Wei SJ. The mitochondrial genome of the multicolored Asian lady beetle Harmonia axyridis (Pallas) and a phylogenetic analysis of the Polyphaga (Insecta: Coleoptera). Mitochondrial DNA A DNA Mapp Seq Anal 2015; 27:2725-7. [PMID: 26057015 DOI: 10.3109/19401736.2015.1046165] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Here, we report the mitochondrial genome sequence of the multicolored Asian lady beetle Harmonia axyridis (Pallas, 1773) (Coleoptera: Coccinellidae) (GenBank accession No. KR108208). This is the first species with sequenced mitochondrial genome from the genus Harmonia. The current length with partitial A + T-rich region of this mitochondrial genome is 16,387 bp. All the typical genes were sequenced except the trnI and trnQ. As in most other sequenced mitochondrial genomes of Coleoptera, there is no re-arrangement in the sequenced region compared with the pupative ancestral arrangement of insects. All protein-coding genes start with ATN codons. Five, five and three protein-coding genes stop with termination codon TAA, TA and T, respectively. Phylogenetic analysis using Bayesian method based on the first and second codon positions of the protein-coding genes supported that the Scirtidae is a basal lineage of Polyphaga. The Harmonia and the Coccinella form a sister lineage. The monophyly of Staphyliniformia, Scarabaeiformia and Cucujiformia was supported. The Buprestidae was found to be a sister group to the Bostrichiformia.
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Affiliation(s)
- Fang-Fang Niu
- a Institute of Plant and Environmental Protection, Beijing Academy of Agriculture and Forestry Sciences , Beijing , China
| | - Liang Zhu
- a Institute of Plant and Environmental Protection, Beijing Academy of Agriculture and Forestry Sciences , Beijing , China
| | - Su Wang
- a Institute of Plant and Environmental Protection, Beijing Academy of Agriculture and Forestry Sciences , Beijing , China
| | - Shu-Jun Wei
- a Institute of Plant and Environmental Protection, Beijing Academy of Agriculture and Forestry Sciences , Beijing , China
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Wu YY, Cao YY, Fang J, Wan X. The first complete mitochondrial genome of stag beetle from China, Prosopocoilus gracilis (Coleoptera, Lucanidae). Mitochondrial DNA A DNA Mapp Seq Anal 2015; 27:2633-4. [PMID: 26024142 DOI: 10.3109/19401736.2015.1041129] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
The complete mitochondrial genome (mitogenome) of Prosopocoilus gracilis (Coleoptera: Lucanidae) that is endemic to Southern China is determined. The circular genome is 736 bp in length and comprises 13 protein-coding genes, 22 tRNA, 2 rRNA genes and a control region. Gene order is identical to that of the putative ancestral arrangement of insects. The nucleotide composition of heavy strand is A (36.6%), C (22.6%), T (29.5%) and G (11.3%). All protein-coding genes start with a typical ATN codon except for the gene COI that uses AAC as the start codon. tRNA-Ser (AGN) uses the anticodon UCU instead of the commonly used GCU. Both maximum likelihood and Bayesian analyses support the monophyly of Lucanidae and the sister relationship of Nigidionus and the remaining sampled genera. Two species of Prosopocoilus were not recovered as a monophyletic group.
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Affiliation(s)
- Yuan-Yuan Wu
- a Department of Ecology , School of Resources & Engineering, Anhui University , Hefei , P.R. China
| | - Yu-Yan Cao
- a Department of Ecology , School of Resources & Engineering, Anhui University , Hefei , P.R. China
| | - Jie Fang
- a Department of Ecology , School of Resources & Engineering, Anhui University , Hefei , P.R. China
| | - Xia Wan
- a Department of Ecology , School of Resources & Engineering, Anhui University , Hefei , P.R. China
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Ou J, Yao FJ, Li YX, Yang Y, Jin C, Wei ZM. The complete mitochondrial genome of the confused flour beetle Tribolium confusum (Coleoptera: Tenebrionidae). Mitochondrial DNA A DNA Mapp Seq Anal 2015; 27:3297-8. [PMID: 25693711 DOI: 10.3109/19401736.2015.1015011] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Flour beetles of the genus Tribolium are economically important as destructive cosmopolitan pests of stored flour, corn, peanuts, and other dried agricultural products. The confused flour beetle Tribolium confusum Jacquelin du Val (1868) is one of the most important pest species of flour beetle. Here we sequenced and characterized the complete mitochondrial genome of T. confusum, the entire sequence is 15,813 bp in size with 72.8% AT content. It consists of 13 protein-coding genes (PCGs), 22 transfer RNA (tRNA), 2 ribosomal RNA (rRNA) genes and one major non-coding AT-rich region. The mitogenome of T. confusum exhibits a gene arrangement and content identical to the most common type in insects. All PCGs are start with a typical ATN initiation codon, except for the cox1, which use AAC as its start codon instead of ATN. Ten genes use standard complete termination codon (six TAA, three TAG), whereas the cox2, cox3, nad4 and nad5 genes end with single T. Except for trnS1 ((AGN)), all tRNA genes display typical secondary cloverleaf structures as those of other insects. The sizes of the large and small ribosomal RNA genes are 1277 and 773 bp, respectively. The AT content of the AT-rich region is 79.5%. The 5 bp conserved motif TACTA was found in the intergenic region between trnS2 ((UCN)) and nad1.
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Affiliation(s)
- Jing Ou
- a Co-Innovation Center for Qinba Regions' Sustainable Development, College of Life Sciences, Shaanxi Normal University , Xi'an , P.R. China
| | - Fu-Jiao Yao
- a Co-Innovation Center for Qinba Regions' Sustainable Development, College of Life Sciences, Shaanxi Normal University , Xi'an , P.R. China
| | - Ya-Xiao Li
- a Co-Innovation Center for Qinba Regions' Sustainable Development, College of Life Sciences, Shaanxi Normal University , Xi'an , P.R. China
| | - Yan Yang
- a Co-Innovation Center for Qinba Regions' Sustainable Development, College of Life Sciences, Shaanxi Normal University , Xi'an , P.R. China
| | - Cheng Jin
- a Co-Innovation Center for Qinba Regions' Sustainable Development, College of Life Sciences, Shaanxi Normal University , Xi'an , P.R. China
| | - Zhao-Ming Wei
- a Co-Innovation Center for Qinba Regions' Sustainable Development, College of Life Sciences, Shaanxi Normal University , Xi'an , P.R. China
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Liu QN, Bian DD, Jiang SH, Li ZX, Ge BM, Xuan FJ, Yang L, Li CF, Zhang DZ, Zhou CL, Tang BP. The complete mitochondrial genome of the red flour beetle, Tribolium castaneum (Coleoptera: Tenebrionidae). Mitochondrial DNA A DNA Mapp Seq Anal 2014; 27:1525-7. [PMID: 25162515 DOI: 10.3109/19401736.2014.953122] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
The complete mitochondrial genome (mitogenome) of Tribolium castaneum (Coleoptera: Tenebrionidae) was determined to be 15,883 bp (GenBank accession No. KM009121), which contains 22 tRNA genes, 13 protein-coding genes (PCGs), 2 rRNA genes and a major non-coding A + T-rich region. It has the typical gene organization and order of mitogenomes from ancestral insects. The nucleotide composition was also biased toward A + T nucleotides (71.72%) and the AT skew of this mitogenome was slightly positive. All of the 22 tRNA genes displayed a typical clover-leaf structure, with the exception of trnS1 (AGN). Thirteen PCGs were initiated by ATN codons, except for cytochrome c oxidase subunit 1 (cox1) gene which was initiated by AAT. Eight of the 13 PCGs harbor the incomplete termination codon by T or TA. The A + T-rich region of the mitogenome was 1237 bp in length and the A + T content was 82.30%.
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Affiliation(s)
- Qiu-Ning Liu
- a Jiangsu Provincial Key Laboratory of Coastal Wetland Bioresources , Jiangsu Synthetic Innovation Center for Coastal Bio-agriculture, Yancheng Teachers University , Yancheng , P.R. China
| | - Dan-Dan Bian
- a Jiangsu Provincial Key Laboratory of Coastal Wetland Bioresources , Jiangsu Synthetic Innovation Center for Coastal Bio-agriculture, Yancheng Teachers University , Yancheng , P.R. China
| | - Sen-Hao Jiang
- a Jiangsu Provincial Key Laboratory of Coastal Wetland Bioresources , Jiangsu Synthetic Innovation Center for Coastal Bio-agriculture, Yancheng Teachers University , Yancheng , P.R. China
| | - Zhen-Xing Li
- a Jiangsu Provincial Key Laboratory of Coastal Wetland Bioresources , Jiangsu Synthetic Innovation Center for Coastal Bio-agriculture, Yancheng Teachers University , Yancheng , P.R. China
| | - Bao-Ming Ge
- a Jiangsu Provincial Key Laboratory of Coastal Wetland Bioresources , Jiangsu Synthetic Innovation Center for Coastal Bio-agriculture, Yancheng Teachers University , Yancheng , P.R. China
| | - Fu-Jun Xuan
- a Jiangsu Provincial Key Laboratory of Coastal Wetland Bioresources , Jiangsu Synthetic Innovation Center for Coastal Bio-agriculture, Yancheng Teachers University , Yancheng , P.R. China
| | - Li Yang
- a Jiangsu Provincial Key Laboratory of Coastal Wetland Bioresources , Jiangsu Synthetic Innovation Center for Coastal Bio-agriculture, Yancheng Teachers University , Yancheng , P.R. China
| | - Chao-Feng Li
- a Jiangsu Provincial Key Laboratory of Coastal Wetland Bioresources , Jiangsu Synthetic Innovation Center for Coastal Bio-agriculture, Yancheng Teachers University , Yancheng , P.R. China
| | - Dai-Zhen Zhang
- a Jiangsu Provincial Key Laboratory of Coastal Wetland Bioresources , Jiangsu Synthetic Innovation Center for Coastal Bio-agriculture, Yancheng Teachers University , Yancheng , P.R. China
| | - Chun-Lin Zhou
- a Jiangsu Provincial Key Laboratory of Coastal Wetland Bioresources , Jiangsu Synthetic Innovation Center for Coastal Bio-agriculture, Yancheng Teachers University , Yancheng , P.R. China
| | - Bo-Ping Tang
- a Jiangsu Provincial Key Laboratory of Coastal Wetland Bioresources , Jiangsu Synthetic Innovation Center for Coastal Bio-agriculture, Yancheng Teachers University , Yancheng , P.R. China
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Ou J, Liu JB, Yao FJ, Wang XG, Wei ZM. The complete mitochondrial genome of the American black flour beetleTribolium audax(Coleoptera: Tenebrionidae). ACTA ACUST UNITED AC 2014; 27:958-9. [DOI: 10.3109/19401736.2014.926504] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
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Kim MJ, Kim KG, Kim I. Description of Nearly Completed Mitochondrial Genome Sequences of the Garden Chafer Polyphylla laticollis manchurica, Endangered in Korea (Insecta: Coleoptera). ACTA ACUST UNITED AC 2013. [DOI: 10.7852/ijie.2013.27.1.185] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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