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Bai Y, Ye L, Yang K, Wang H. Complete mitochondrial genome of Pseudoechthistatus hei (Coleoptera: Cerambycidae: Lamiinae) and its phylogenetic analysis. MITOCHONDRIAL DNA PART B 2022; 7:1997-2001. [PMID: 36406824 PMCID: PMC9668276 DOI: 10.1080/23802359.2022.2145175] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
The little-known genus Pseudoechthistatus Pic, 1917 belongs to the subfamily Lamiinae of the family Cerambycidae. Adult Pseudoechthistatus hei Xie and W. Wang, 2019 specimens were collected from Bāijì Hill, Xīntángfáng Village, Wéixī County, Yúnnán Province, China. The complete mitochondrial genome (GenBank accession number: ON641973.1) of P. hei was sequenced, annotated, and characterized; it is a circular DNA molecule of 16,103 bp with a 75.71% AT content, and it comprised 13 protein-coding genes (PCG), 22 tRNA genes, two rRNA genes, and 1 control region. The PCGs initiated with the typical ATN (Met) start codons, and were terminated by typical TAN stop codons. The Bayesian Inference phylogenetic tree was first constructed using JTT + F + I + G4 model for P. hei, which showed that P. hei was closely related to Monochamus alternatus alternatus.
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Affiliation(s)
- Yu Bai
- College of Mathematics and Information Science, Guiyang University, Guiyang City, China
| | - Lin Ye
- College of Biology and Environmental Engineering, Guiyang University, Guiyang City, China
| | - Kang Yang
- College of Biology and Environmental Engineering, Guiyang University, Guiyang City, China
| | - Hui Wang
- Guizhou Provincial Key Laboratory for Rare Animal and Economic Insects of the Mountainous Region, Guiyang University, Guiyang City, China
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New and Emerging Insect Pest and Disease Threats to Forest Plantations in Vietnam. FORESTS 2021. [DOI: 10.3390/f12101301] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
The planted forest area in Vietnam increased from 3.0 to 4.4 million hectares in the period 2010–2020, but the loss of productivity from pests and diseases continues to be a problem. During this period, frequent and systematic plantation forest health surveys were conducted on 12 native and 4 exotic genera of trees as well as bamboo across eight forest geographic regions of Vietnam. Damage caused by insects and pathogens was quantified in the field and laboratory in Hanoi. The threats of greatest concern were from folivores (Antheraea frithi, Arthroschista hilaralis, Atteva fabriciella, Hieroglyphus tonkinensis, Lycaria westermanni,Krananda semihyalina, and Moduza procris), wood borers (Batocera lineolata, Euwallacea fornicatus, Tapinolachnus lacordairei, Xyleborus perforans, and Xystrocera festiva), sap-sucking insects (Aulacaspis tubercularis and Helopeltis theivora) and pathogens (Ceratocystis manginecans, Fusarium solani, and Phytophthora acaciivora). The number of new and emerging pests and pathogens increased over time from 2 in 2011 to 17 in 2020, as the damage became more widespread. To manage these pests and diseases, it is necessary to further invest in the selection and breeding of resistant genotypes, improve nursery hygiene and silvicultural operations, and adopt integrated pest management schemes. Consideration should be given to developing forest health monitoring protocols for forest reserves and other special-purpose forests.
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Fu LW, Liu J, Wang CH, Lin SK, Liu LX, Liu YG, Ji YQ. The complete mitochondrial DNA sequence of Putian Loquat longicorn ( Anoplophora chinensis). Mitochondrial DNA B Resour 2020. [DOI: 10.1080/23802359.2020.1730260] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022] Open
Affiliation(s)
- Long-Wei Fu
- College of Life Sciences and Technology, Xinjiang University, Urumqi, China
- Key Laboratory of Loquat Germplasm Innovation and Utilization (Putian University), Fujian Province University, Putian, China
| | - Jun Liu
- College of Life Sciences and Technology, Xinjiang University, Urumqi, China
| | - Chun-Hua Wang
- Key Laboratory of Loquat Germplasm Innovation and Utilization (Putian University), Fujian Province University, Putian, China
| | - Shou-Kai Lin
- Key Laboratory of Loquat Germplasm Innovation and Utilization (Putian University), Fujian Province University, Putian, China
| | - Ling-Xiao Liu
- Linyi Academy of Agricultural Sciences, Linyi, China
| | - Yun-Guo Liu
- College of Life Sciences, Linyi University, Linyi, China
| | - Yan-Qing Ji
- College of Life Sciences, Linyi University, Linyi, China
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Liu YQ, Chen DB, Liu HH, Hu HL, Bian HX, Zhang RS, Yang RS, Jiang XF, Shi SL. The Complete Mitochondrial Genome of the Longhorn Beetle Dorysthenes paradoxus (Coleoptera: Cerambycidae: Prionini) and the Implication for the Phylogenetic Relationships of the Cerambycidae Species. JOURNAL OF INSECT SCIENCE (ONLINE) 2018; 18:4917681. [PMID: 29718483 PMCID: PMC5833319 DOI: 10.1093/jisesa/iey012] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/22/2017] [Indexed: 06/08/2023]
Abstract
The longhorn beetle Dorysthenes paradoxus (Faldermann, 1833) (Coleoptera: Cerambycidae) is not only a serious agricultural pest but also a traditionally edible insect in China. However, no genetic information on this species has been acquired. In the present study, we report the mitochondrial genome (mitogenome) of Do. paradoxus, as the first complete mitogenome of Prioninae. The circular mitogenome of 15,922 bp encodes 13 protein-coding genes (PCGs), 22 transfer RNAs (tRNAs), and two ribosomal RNAs (rRNAs), and it contains an A+T-rich region. This mitogenome exhibits the lowest A+T content (71.13%) but harbors the largest AT skew (0.116) among the completely sequenced Cerambycidae species. Eleven of the 13 PCGs have a typical ATN start codon, whereas COI and ND1 are tentatively designated by AAT and TTG, respectively. Only 4 of the 13 PCGs harbor a complete termination codon, and the remaining 9 possess incomplete termination codons (T or TA). Apart from tRNASer(AGN), the other 21 tRNAs can fold into a typical clover-leaf secondary structures. The Do. paradoxus A+T-rich region contains two poly-T stretches and a tandem repeat that comprises two 47-bp-long copies. Both Bayesian inference and Maximum likelihood analyses confirmed the subfamily ranks of Cerambycidae ([Prioninae + Cerambycinae] + Lamiinae) and the close relationship between Philinae and Prioninae/Cerambycinae. However, the data did not support the monophyly of Prioninae and Cerambycinae. The mitogenome presented here provides basic genetic information for this economically important species.
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Affiliation(s)
- Yan-Qun Liu
- Insect Resource Center for Engineering and Technology of Liaoning Province, College of Bioscience and Biotechnology, Shenyang Agricultural University, Shenyang, China
| | - Dong-Bin Chen
- Insect Resource Center for Engineering and Technology of Liaoning Province, College of Bioscience and Biotechnology, Shenyang Agricultural University, Shenyang, China
| | - Huan-Huan Liu
- Department of Food Nutrition and Detection, Yuncheng Agricultural Vocational Technical College, Yuncheng, China
| | - Hua-Lei Hu
- Insect Resource Center for Engineering and Technology of Liaoning Province, College of Bioscience and Biotechnology, Shenyang Agricultural University, Shenyang, China
| | - Hai-Xu Bian
- Insect Resource Center for Engineering and Technology of Liaoning Province, College of Bioscience and Biotechnology, Shenyang Agricultural University, Shenyang, China
| | - Ru-Song Zhang
- Insect Resource Center for Engineering and Technology of Liaoning Province, College of Bioscience and Biotechnology, Shenyang Agricultural University, Shenyang, China
| | - Rui-Sheng Yang
- Insect Resource Center for Engineering and Technology of Liaoning Province, College of Bioscience and Biotechnology, Shenyang Agricultural University, Shenyang, China
| | - Xing-Fu Jiang
- State Key laboratory for Biology of Plant Diseases and Insect Pest, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Sheng-Lin Shi
- Insect Resource Center for Engineering and Technology of Liaoning Province, College of Bioscience and Biotechnology, Shenyang Agricultural University, Shenyang, China
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Characterization of the complete mitochondrial genome of Biston marginata (Lepidoptera: Geometridae) and phylogenetic analysis among lepidopteran insects. Int J Biol Macromol 2018; 113:961-970. [PMID: 29462677 DOI: 10.1016/j.ijbiomac.2018.02.110] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2017] [Revised: 02/14/2018] [Accepted: 02/16/2018] [Indexed: 01/05/2023]
Abstract
The complete mitochondrial genome (mitogenome) of Biston marginata (Lepidoptera: Geometridae) was determined and annotated. The circular genome is 15,470bp long and it contains the entire set of 37 genes usually present in lepidopteran mitogenomes. The nucleotide composition of the genome is highly A+T biased, accounting for 81.20%, with a slightly positive AT skewness (0.028), indicating the occurrence of more As than Ts, as found in other Geometridae species. Except for cox1 gene starts with non-canonical initial codon CGA, all protein-coding genes start with ATN codon. Three of the 13 PCGs (protein coding gene) had an incomplete termination codon, T or TA, while the others terminated with TAA. All tRNA genes are predicted to fold into typical clover-leaf secondary structure, except for the trnS1 (AGN), in which the dihydrouridine (DHU) arm could not form a stable stem-loop structure. The A+T-rich region of 343bp is comprised of non-repetitive sequences, but have several distinctive features, including the motif "ATAGA" followed by a 19bp poly-T stretch, a microsatellite-like (TA)7 element next to the ATTTA motif. The phylogenetic analyses support the view that the B. marginata is closely related to the Biston pantrinaria, and confirm that Biston marginata belongs to the family Geometridae.
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Yao J, Yang H, Dai R. Characterization of the complete mitochondrial genome of Acanthoscelides obtectus (Coleoptera: Chrysomelidae: Bruchinae) with phylogenetic analysis. Genetica 2017; 145:397-408. [PMID: 28730527 DOI: 10.1007/s10709-017-9975-9] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2017] [Accepted: 07/04/2017] [Indexed: 11/26/2022]
Abstract
Acanthoscelides obtectus is a common species of the subfamily Bruchinae and a worldwide-distributed seed-feeding beetle. The complete mitochondrial genome of A. obtectus is 16,130 bp in length with an A + T content of 76.4%. It contains a positive AT skew and a negative GC skew. The mitogenome of A. obtectus contains 13 protein-coding genes (PCGs), 22 tRNA genes, two rRNA genes and a non-coding region (D-loop). All PCGs start with an ATN codon, and seven (ND3, ATP6, COIII, ND3, ND4L, ND6, and Cytb) of them terminate with TAA, while the remaining five (COI, COII, ND1, ND4, and ND5) terminate with a single T, ATP8 terminates with TGA. Except tRNA Ser , the secondary structures of 21 tRNAs that can be folded into a typical clover-leaf structure were identified. The secondary structures of lrRNA and srRNA were also predicted in this study. There are six domains with 48 helices in lrRNA and three domains with 32 helices in srRNA. The control region of A. obtectus is 1354 bp in size with the highest A + T content (83.5%) in a mitochondrial gene. Thirteen PCGs in 19 species have been used to infer their phylogenetic relationships. Our results show that A. obtectus belongs to the family Chrysomelidae (subfamily-Bruchinae). This is the first study on phylogenetic analyses involving the mitochondrial genes of A. obtectus and could provide basic data for future studies of mitochondrial genome diversities and the evolution of related insect lineages.
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Affiliation(s)
- Jie Yao
- The Provincial Key Laboratory for Agricultural Pest Management Mountainous Region, Institute of Entomology, Guizhou University, Guiyang, 550025, Guizhou, People's Republic of China
| | - Hong Yang
- The Provincial Key Laboratory for Agricultural Pest Management Mountainous Region, Institute of Entomology, Guizhou University, Guiyang, 550025, Guizhou, People's Republic of China
| | - Renhuai Dai
- The Provincial Key Laboratory for Agricultural Pest Management Mountainous Region, Institute of Entomology, Guizhou University, Guiyang, 550025, Guizhou, People's Republic of 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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Amaral DT, Mitani Y, Oliveira G, Ohmiya Y, Viviani VR. Revisiting Coleoptera a + T-rich region: structural conservation, phylogenetic and phylogeographic approaches in mitochondrial control region of bioluminescent Elateridae species (Coleoptera). Mitochondrial DNA A DNA Mapp Seq Anal 2016; 28:671-680. [PMID: 27159725 DOI: 10.3109/24701394.2016.1174220] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
The control region (CR) or A + T-rich region in Coleoptera mt genome is poorly characterized, including the Elateroidea bioluminescent species. Here, we provided the first attempt to characterize and compare the structure and organization of the CR of different species within Elateridae. We also revisited some sequenced Coleoptera CR and observed consensus T-stretches, non-conserved sequences near the stem-loop and unusual inner tRNAs-like sequences. All these features are probably involved in the replication start of the mt genome. The phylogenetic relationships in Elateridae bioluminescent groups using partial sequence of CR showed the monophyly of Pyrearinus pumilus group and Pyrearinus as a polyphyletic genus, corroborating our previous results. The wider genetic variation obtained by CR analysis could separate two different lineages that occur within P. termitilluminans populations. In Elateridae, the CR exhibited high polymorphism within and between populations, which was also observed in other Coleoptera species, suggesting that the CR could be described as a suitable molecular marker to be applied in phylogenetic and phylogeographic studies.
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Affiliation(s)
- Danilo T Amaral
- a Graduate School of Biotechnology and Environmental Monitoring (UFSCar) , Sorocaba , SP , Brazil.,b Graduate School of Evolutive Genetics and Molecular Biology , Federal University of São Carlos (UFSCar) , São Carlos , SP , Brazil
| | - Yasuo Mitani
- c Bioproduction Research Institute, National Institute of Advanced Industrial Science and Technology (AIST) , Tsukuba , Japan
| | - Gabriela Oliveira
- a Graduate School of Biotechnology and Environmental Monitoring (UFSCar) , Sorocaba , SP , Brazil.,b Graduate School of Evolutive Genetics and Molecular Biology , Federal University of São Carlos (UFSCar) , São Carlos , SP , Brazil
| | - Yoshihiro Ohmiya
- d Biomedical Research Institute, National Institute of Advanced Industrial Science and Technology (AIST) , Tsukuba , Japan
| | - Vadim R Viviani
- a Graduate School of Biotechnology and Environmental Monitoring (UFSCar) , Sorocaba , SP , Brazil.,b Graduate School of Evolutive Genetics and Molecular Biology , Federal University of São Carlos (UFSCar) , São Carlos , SP , Brazil
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Li W, Yang X, Qian L, An Y, Fang J. The complete mitochondrial genome of the citrus long-horned beetle, Anoplophora chinensis (Coleoptera: Cerambycidae). Mitochondrial DNA A DNA Mapp Seq Anal 2015; 27:4665-4667. [PMID: 26643058 DOI: 10.3109/19401736.2015.1106493] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
In this paper, the complete mitochondrial genome of Anoplophora chinensis is sequenced and reported for the first time. The mitochondrial genome is a circular molecule of 15 805 bp, 13 protein-coding genes (PCGs), 22 transfer RNA genes, 2 ribosomal RNA genes, and 1 control region. Nine protein-coding genes and 14 tRNA genes are encoded on the H strand, and the other four protein-coding genes and eight tRNA genes are encoded on the L strand. The arrangement of genes is identical to all know long-horn beetles mitochondrial genomes. The nucleotide composition of the A. chinensis mitogenome is strongly biased toward A + T nucleotides (77.65%). Finally, the phylogenetic relationships of 12 Lamiinae species were reconstructed based on nucleotide sequences of COI using the Bayesian inference method. These molecular-based phylogenies support the traditional morphologically based view of relationships within the Lamiinae.
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Affiliation(s)
- Wenbo Li
- a School of Life Sciences, Anhui University , Hefei , Anhui , China and
| | - Xiaojun Yang
- b Plant Quarantine Laboratory of Jiangsu Entry-Exit Inspection and Quarantine Bureau of China , Nanjing , China
| | - Lu Qian
- b Plant Quarantine Laboratory of Jiangsu Entry-Exit Inspection and Quarantine Bureau of China , Nanjing , China
| | - Yulin An
- b Plant Quarantine Laboratory of Jiangsu Entry-Exit Inspection and Quarantine Bureau of China , Nanjing , China
| | - Jie Fang
- a School of Life Sciences, Anhui University , Hefei , Anhui , China and
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Fang J, Qian L, Xu M, Yang X, Wang B, An Y. The complete nucleotide sequence of the mitochondrial genome of the Asian longhorn beetle, Anoplophora glabripennis (Coleoptera: Cerambycidae). Mitochondrial DNA A DNA Mapp Seq Anal 2015; 27:3299-300. [PMID: 25693709 DOI: 10.3109/19401736.2015.1015012] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
The complete mitochondrial genome of Anoplophora glabripennis has been investigated and analyzed. The genome is a circular molecule of 15,774 bp, containing 13 protein-coding genes (PCGs), 2 rRNA genes, 22 tRNA genes, and an A + T-rich region. The nucleotide composition of the A.glabripennis mitogenome is strongly biased toward A + T nucleotides (78.30%). Nine protein-coding genes and 14 tRNA genes are encoded on the H strand, and the other 4 protein-coding genes and 8 tRNA genes are encoded on the L strand. The arrangement of genes is identical to all know longhorn beetles mitochondrial genomes.
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Affiliation(s)
- Jie Fang
- a School of Life Sciences, Anhui University , Hefei , Anhui , P.R. China
| | - Lu Qian
- b College of Forest, Nanjing Forestry University , Nanjing , P.R. China .,c Plant Quarantine Laboratory of Jiangsu Entry-Exit Inspection and Quarantine Bureau of China , Nanjing , P.R. China , and
| | - Mei Xu
- c Plant Quarantine Laboratory of Jiangsu Entry-Exit Inspection and Quarantine Bureau of China , Nanjing , P.R. China , and
| | - Xiaojun Yang
- c Plant Quarantine Laboratory of Jiangsu Entry-Exit Inspection and Quarantine Bureau of China , Nanjing , P.R. China , and
| | - Baode Wang
- d Otis Plant Protection Laboratory of APHIS , USDA , Plymouth , American Samoa
| | - Yulin An
- c Plant Quarantine Laboratory of Jiangsu Entry-Exit Inspection and Quarantine Bureau of China , Nanjing , P.R. China , and
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The mitochondrial genome of Dastarcus helophoroides (Coleoptera: Bothrideridae) and related phylogenetic analyses. Gene 2014; 560:15-24. [PMID: 25523091 DOI: 10.1016/j.gene.2014.12.026] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/19/2014] [Revised: 11/21/2014] [Accepted: 12/12/2014] [Indexed: 11/23/2022]
Abstract
The complete mitochondrial genome of Dastarcus helophoroides (Coleoptera: Bothrideridae) which consists of 13 PCGs, 22 tRNA genes, two rRNA genes and a non-coding region (D-loop), is sequenced for its nucleotide sequence of 15,878 bp (GenBank: KF811054.1). The genome has a typical gene order which is identical to other Coleoptera species. Except for COI gene generally starts with non-canonical initial codon, all protein-coding genes start with ATN codon and terminate with the stop codon TA(A) or TAG. The secondary structure of rrnL and rrnS consists of 48 helices (contains four newly proposed helices) and 35 helices (contains two newly proposed helices) respectively. All 22 tRNAs in D. helophoroides are predicted to fold into typical cloverleaf secondary structure, except trnS1 (AGN), in which the dihydrouracil arm (DHU arm) could not form stable stem-loop structure. Thirteen protein-coding genes (nucleotide dataset and nucleic acid dataset) of the available species (29 taxa) have been used to infer the phylogenetic relationships among these orders. Tenebrionoidea and Cucujoidea form a sister group, and D. helophoroides is classified into Cucujoidea (Bothrideridae). The study first research on the phylogenetic analyses involving to the D. helophoroides mitogenome, and the results strongly bolster the current morphology-based hypothesis.
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Li S, Liu G, Chen Z, Wang Y, Li P, Hua J. Construction and initial analysis of five Fosmid libraries of mitochondrial genomes of cotton (Gossypium). ACTA ACUST UNITED AC 2013. [DOI: 10.1007/s11434-013-5962-4] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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