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Dallagnol LC, Cônsoli FL. Evolutionary and phylogenetic insights from the mitochondrial genomic analysis of Diceraeus melacanthus and D. furcatus (Hemiptera: Pentatomidae). Sci Rep 2024; 14:12861. [PMID: 38834792 DOI: 10.1038/s41598-024-63584-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2024] [Accepted: 05/30/2024] [Indexed: 06/06/2024] Open
Abstract
The mitochondrial genomes of D. melacanthus and D. furcatus were sequenced and used to investigate the phylogenetic relationships with 54 species of Pentatomidae. Their mitogenomes are 17,197 and 15,444 bp-long, respectively, including 13 protein-coding genes (PCGs), 2 ribosomal RNA genes, and 22/21 transfer RNA genes, with conserved gene arrangement. Leu, Lys, and Ser were the most common amino acids in their PCGs. PCGs evolutionary analysis indicated their mitogenomes are under purifying selection, and the most conserved genes are from the cytochrome complex, reinforcing their suitability as markers for molecular taxonomy. We identified 490 mtSSRs in 56 Pentatomidae species, with large variation and a positive correlation between mtSSR number and genome size. Three mtSSRs were identified in each Diceraeus species. Only the mtSSR in the nad6 (D. melacanthus) and nad4 (D. furcatus) appear to have application as molecular markers for species characterization. Phylogenetic analysis confirmed the monophyly of Pentatomidae. However, our analysis challenged the monophyly of Pentatominae and Podopinae. We also detected unexpected relationships among some tribes and genera, highlighting the complexity of the internal taxonomic structure of Pentatomidae. Both Diceraeus species were grouped in the same clade with the remaining Carpocorini analyzed.
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Affiliation(s)
- Lilian Cris Dallagnol
- Insect Interactions Laboratory, Luiz de Queiroz College of Agriculture, University of São Paulo, Piracicaba, SP, Brazil
| | - Fernando Luís Cônsoli
- Insect Interactions Laboratory, Luiz de Queiroz College of Agriculture, University of São Paulo, Piracicaba, SP, Brazil.
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Zhang D, Chen X, Yang J, Yi W, Xie Q, Yang H, Sweet MH, Bu W, Li T. Phylogenetic placement and comparative analysis of the mitochondrial genomes of Idiostoloidea (Hemiptera: Heteroptera). Ecol Evol 2024; 14:e11328. [PMID: 38698924 PMCID: PMC11063732 DOI: 10.1002/ece3.11328] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2023] [Revised: 04/06/2024] [Accepted: 04/10/2024] [Indexed: 05/05/2024] Open
Abstract
The classification system and the higher level phylogenetic relationships of Pentatomomorpha, the second largest infraorder of Heteroptera (Insecta: Hemiptera), have been debated and remain controversial over decades. In particular, the placement and phylogenetic relationship of Idiostoloidea are not well resolved, which hampers a better understanding of the evolutionary history of Pentatomomorpha. In this study, for the first time, we reported the complete mitochondrial genome for two narrowly distributed families of Idiostoloidea (including Idiostolidae and Henicocoridae), respectively. The length of the mitochondrial genome of Monteithocoris hirsutus and Henicocoris sp. is 16,632 and 16,013 bp, respectively. The content of AT is ranging from 75.15% to 80.48%. The mitogenomic structure of Idiostoloidea is highly conservative and there are no gene arrangements. By using the Bayesian inference, maximum likelihood, and Bayesian site-heterogeneous mixture model, we inferred the phylogenetic relationships within Pentatomomorpha and estimated their divergence times based on concatenated mitogenomes and nuclear ribosomal genes. Our results support the classification system of six superfamilies within Pentatomomorpha and confirm the monophyletic groups of each superfamily, with the following phylogenetic relationships: (Aradoidea + (Pentatomoidea + (Idiostoloidea + (Coreoidea + (Pyrrhocoroidea + Lygaeoidea))))). Furthermore, estimated divergence times revealed that most pentatomomorphan superfamilies and families diverged during the Late Jurassic to Early Cretaceous, which coincides with the explosive radiation of angiosperms.
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Affiliation(s)
- Danli Zhang
- College of Biological Sciences and TechnologyTaiyuan Normal UniversityJinzhongChina
| | - XiaoYan Chen
- College of Biological Sciences and TechnologyTaiyuan Normal UniversityJinzhongChina
| | - Jingjing Yang
- College of Biological Sciences and TechnologyTaiyuan Normal UniversityJinzhongChina
| | - Wenbo Yi
- Institute of Entomology, College of Life SciencesNankai UniversityTianjinChina
| | - Qiang Xie
- Institute of Entomology, College of Life SciencesNankai UniversityTianjinChina
| | - HuanHuan Yang
- School of BioengineeringQilu University of Technology (Shandong Academy of Sciences)JinanChina
| | - Merrill H. Sweet
- Department of Entomology, Plant Pathology, and Weed ScienceNew Mexico State UniversityLas CrucesNew MexicoUSA
| | - Wenjun Bu
- Institute of Entomology, College of Life SciencesNankai UniversityTianjinChina
| | - Teng Li
- Institute of Entomology, College of Life SciencesNankai UniversityTianjinChina
- School of Biological SciencesUniversity of AucklandAucklandNew Zealand
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Chen C, Bai D, Zhang Z, Ding X, Yang S, Zhao Q, Zhang H. Describe the morphology and mitochondrial genome of Mecidea indica Dallas, 1851 (Hemiptera, Pentatomidae), with its phylogenetic position. PLoS One 2024; 19:e0299298. [PMID: 38547075 PMCID: PMC10977800 DOI: 10.1371/journal.pone.0299298] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2023] [Accepted: 02/07/2024] [Indexed: 04/02/2024] Open
Abstract
We here describe the external morphology and complete mitochondrial genome characteristics of Mecidea indica Dallas, 1851, and clarify the evolutionary rate and divergence time. The M. indica mitochondrial genome length is 15,670 bp, and it exhibits a typical high A+T-skew (76.31%). The sequence shows strong synteny with the original gene arrangement of Drosophila yakuba Burla, 1954 without rearrangement. The M. indica mitochondrial genome characteristics were analyzed, and phylogenetic trees of Pentatomidae were reconstructed using Bayesian methods based on different datasets of the mitochondrial genome datasets. Phylogenetic analysis shows that M. indica belongs to Pentaotominae and form a sister-group with Anaxilaus musgravei Gross, 1976, and Asopinae is highly supported as monophyletic. Molecular clock analysis estimates a divergence time of Pentatomidae of 122.75 Mya (95% HPD: 98.76-145.43 Mya), within the Mesozoic Cretaceous; the divergence time of M. indica and A. musgravii was no later than 50.50 Mya (95% HPD: 37.20-64.80 Mya). In addition, the divergence time of Asopinae was 62.32 Mya (95% HPD: 47.08-78.23 Mya), which was in the Paleogene of the Cenozoic era. This study is of great significance for reconstructing the phylogeny of Pentatomidae and providing insights into its evolutionary history.
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Affiliation(s)
- Chao Chen
- College of Plant Protection, Shanxi Agricultural University, Taigu, Shanxi, China
| | - Dongmei Bai
- College of Plant Protection, Shanxi Agricultural University, Taigu, Shanxi, China
| | - Zhenhua Zhang
- College of Plant Protection, Shanxi Agricultural University, Taigu, Shanxi, China
| | - Xiaofei Ding
- College of Plant Protection, Shanxi Agricultural University, Taigu, Shanxi, China
| | - Shuzhen Yang
- College of Plant Protection, Shanxi Agricultural University, Taigu, Shanxi, China
| | - Qing Zhao
- College of Plant Protection, Shanxi Agricultural University, Taigu, Shanxi, China
| | - Hufang Zhang
- Department of Biology, Xinzhou Teachers University, Xinzhou, Shanxi, China
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Chen Q, Li Y, Chen Q, Tian X, Wang Y, Wang Y. Mitogenome of the stink bug Aelia fieberi (Hemiptera: Pentatomidae) and a comparative genomic analysis between phytophagous and predatory members of Pentatomidae. PLoS One 2023; 18:e0292738. [PMID: 37819898 PMCID: PMC10566676 DOI: 10.1371/journal.pone.0292738] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2023] [Accepted: 09/27/2023] [Indexed: 10/13/2023] Open
Abstract
Aelia fieberi Scott, 1874 is a pest of crops. The mitogenome of A. fieberi (OL631608) was decoded by next-generation sequencing. The mitogenome, with 41.89% A, 31.70% T, 15.44% C and 10.97% G, is 15,471 bp in size. The phylogenetic tree showed that Asopinae and Phyllocephalinae were monophyletic; however, Pentatominae and Podopinae were not monophyletic, suggesting that the phylogenetic relationships of Pentatomoidae are complex and need revaluation and revision. Phytophagous bugs had a ~20-nucleotide longer in nad2 than predatory bugs. There were differences in amino acid sequence at six sites between phytophagous bugs and predatory bugs. The codon usage analysis indicated that frequently used codons used either A or T at the third position of the codon. The analysis of amino acid usage showed that leucine, isoleucine, serine, methionine, and phenylalanine were the most abundant in 53 species of Pentatomoidae. Thirteen protein-coding genes were evolving under purifying selection, cox1, and atp8 had the strongest and weakest purifying selection stress, respectively. Phytophagous bugs and predatory bugs had different evolutionary rates for eight genes. The mitogenomic information of A. fieberi could fill the knowledge gap for this important crop pest. The differences between phytophagous bugs and predatory bugs deepen our understanding of the effect of feeding habit on mitogenome.
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Affiliation(s)
- Qianquan Chen
- School of Life Sciences, Guizhou Normal University, Gui’an, China
| | - Yongqin Li
- School of Life Sciences, Guizhou Normal University, Gui’an, China
| | - Qin Chen
- School of Life Sciences, Guizhou Normal University, Gui’an, China
| | - Xiaoke Tian
- School of Life Sciences, Guizhou Normal University, Gui’an, China
| | - Yuqian Wang
- School of Life Sciences, Guizhou Normal University, Gui’an, China
| | - Yeying Wang
- School of Life Sciences, Guizhou Normal University, Gui’an, China
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Yan B, Chen S. Complete mitochondrial genome of Cyclopelta obscura (Lepeletier & Serville, 1825) (Hemiptera: Pentatomoidea: Dinidoridae) and phylogenetic analysis of Pentatomoidea species. ARCHIVES OF INSECT BIOCHEMISTRY AND PHYSIOLOGY 2023; 114:1-17. [PMID: 36415060 DOI: 10.1002/arch.21985] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/30/2022] [Revised: 10/27/2022] [Accepted: 10/30/2022] [Indexed: 06/16/2023]
Abstract
Cyclopelta obscura is a crop pest, which mainly damages legumes, especially Robinia pseudoacacia and Cercis chinensis. In recent years, many mitochondrial and nuclear DNA sequences of C. obscura have been sequenced and used for phylogenetic inference. However, the complete mitogenome has not been reported yet and studies on the phylogenetic relationships within Dinidoridae are rare. In this study, we sequenced the mitogenome of C. obscura and conducted comparative mitogenomic analyses of seven Dinidoridae species based on several different factors. The length of the mitogenome is 15,426 bp, which includes 37 typical mitochondrial genes (13 protein-coding genes (PCGs), 22 tRNAs, and 2 rRNAs) and a control region (796 bp long), as well as 13 intergenic spacers and 8 overlapping regions. Most PCGs of C. obscura began with the classical start codon ATN, while cox1 and nad4l used TTG, and nad1 used GTG. The Dinidoridae mitogenomes are highly conserved in terms of nucleotide composition, the codon usage of PCGs, and the secondary structure of tRNA. Phylogenetic analysis based on four datasets with two methods recovered the Dinidoridae as a monophyletic group with strong support values. All results indicate that Dinidoridae formed a sister group to Tessaratomidae, and (Tessaratomidae + Dinidoridae) formed a sister group to Cydnidae in most of the phylogenetic trees. Additionally, seven species within the Dinidoridae, we observed the following relationship: (Eumenotes sp. + (Cyclopelta parva + C. obscura)) + ((Megymenum gracilicorne + Megymenum brevicorne) + (Coridius chinensis + Coridius brunneu)).
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Affiliation(s)
- Baorong Yan
- Department of Primary Education, North Sichuan College of Preschool Teacher Education, GuangYuan, Sichuan, China
| | - Shunde Chen
- College of Life Science, Sichuan Normal University, Chengdu, Sichuan, China
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Wang S, Ding X, Yi W, Zhao W, Zhao Q, Zhang H. Comparative mitogenomic analysis of three bugs of the genus Hygia Uhler, 1861 (Hemiptera, Coreidae) and their phylogenetic position. Zookeys 2023; 1179:123-138. [PMID: 37719777 PMCID: PMC10504634 DOI: 10.3897/zookeys.1179.100006] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2023] [Accepted: 08/21/2023] [Indexed: 09/19/2023] Open
Abstract
Hygia Uhler, 1861 is the largest genus in the bug family Coreidae. Even though many species of this genus are economically important, the complete mitogenomes of Hygia species have not yet been reported. Therefore, in the present study, the complete mitogenomes of three Hygia species, H.lativentris (Motschulsky, 1866), H.bidentata Ren, 1987, and H.opaca (Uhler, 1860), are sequenced and characterized, and submitted in a phylogenetic analysis of the Coreidae. The results show that mitogenomes of the three species are highly conserved, typically with 37 genes plus its control region. The lengths are 16,313 bp, 17,023 bp, and 17,022 bp, respectively. Most protein-coding genes (PCGs) in all species start with the standard codon ATN and terminate with one of three stop codons: TAA, TAG, or T. The tRNAs secondary structures of all species have a typical clover structure, except for the trnS1 (AGC) in H.bidentata, which lacks dihydrouridine (DHU) arm that forms a simple loop. Variation in the length of the control region led to differences in mitochondrial genome sizes. The maximum-likelihood (ML) and Bayesian-inference (BI) phylogenetic analyses strongly supported the monophyly of Hygia and its position within Coreidae, and the relationships are ((H.bidentata + (H.opaca + (H.lativentris + Hygia sp.))). The results provide further understanding for future phylogenetic studies of Coreidae.
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Affiliation(s)
- Shijun Wang
- College of Plant Protection, Shanxi Agriculture University, Jinzhong 030800, Shanxi, ChinaShanxi Agriculture UniversityJinzhongChina
- Department of Biology, Xinzhou Teachers University, Xinzhou 034000, Shanxi, ChinaXinzhou Teachers UniversityXinzhouChina
| | - Xiaofei Ding
- College of Plant Protection, Shanxi Agriculture University, Jinzhong 030800, Shanxi, ChinaShanxi Agriculture UniversityJinzhongChina
| | - Wenbo Yi
- Department of Biology, Xinzhou Teachers University, Xinzhou 034000, Shanxi, ChinaXinzhou Teachers UniversityXinzhouChina
| | - Wanqing Zhao
- Department of Biology, Xinzhou Teachers University, Xinzhou 034000, Shanxi, ChinaXinzhou Teachers UniversityXinzhouChina
| | - Qing Zhao
- College of Plant Protection, Shanxi Agriculture University, Jinzhong 030800, Shanxi, ChinaShanxi Agriculture UniversityJinzhongChina
| | - Hufang Zhang
- College of Plant Protection, Shanxi Agriculture University, Jinzhong 030800, Shanxi, ChinaShanxi Agriculture UniversityJinzhongChina
- Department of Biology, Xinzhou Teachers University, Xinzhou 034000, Shanxi, ChinaXinzhou Teachers UniversityXinzhouChina
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7
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Hao C, Liu Y, Wei N, Arken K, Shi C, Yue C. The complete mitochondrial genomes of the Leuciscus baicalensis and Rutilus rutilus: a detailed genomic comparison among closely related species of the Leuciscinae subfamily. Gene 2023:147535. [PMID: 37328078 DOI: 10.1016/j.gene.2023.147535] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2023] [Revised: 05/04/2023] [Accepted: 05/31/2023] [Indexed: 06/18/2023]
Abstract
Cyprinidae is the largest family in the order of freshwater fish Cypriniformes. Increased subfamily members of Cyprinidae have been suggested to be re-classified for decades. In this study, we sequenced the mitochondrial genomes (mitogenomes) of Leuciscus baicalensis and Rutilus rutilus collected from northwest China and compared with other closely related species to determine their associated family or subfamily. We used Illumina NovaSeq to sequence the entire mitochondrial genomes of Leuciscus baicalensis and Rutilus rutilus and characterized the mitogenomes by the gene structure, gene order, and the secondary structures of the 22 tRNA genes. We compared mitogenome features of Leuciscinae with other subfamilies in Cyprinidae. We used the analytic Bayesian Information and Maximum Likelihood methods to determine phylogenetic trees of 13 PCGs. The mitogenomes of Leuciscus baicalensis and Rutilus rutilus were 16,607 bp and 16,606 bp, respectively. Organization and location of these genes were consistent with already studied Leuciscinae fishes. Synonymous codon usage was conservative in Leuciscinae as compared with other subfamilies in Cyprinidae. Phylogenetic analysis indicated that Leuciscinae was a monophyletic group, and genus Leuciscus was a paraphyletic group. Our approach, for the first time, of studying comparative mitochondrial genomics and phylogenetics together provided a supportive platform to the analysis of population genetics and phylogeny for Leuciscinae. Our results indicated a promising potential of comparative mitochondrial genomics in the manifestation of phylogenetic relationships between fishes, leading us to a suggestion that mitogenomes should be routinely considered in clarifying phylogenetics of family and subfamily members of fish.
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Affiliation(s)
- Cuilan Hao
- College of Veterinary Medicine, Xinjiang Agricultural University, Urumqi, China.
| | - Yanjun Liu
- College of Veterinary Medicine, Xinjiang Agricultural University, Urumqi, China
| | - Nianwen Wei
- College of Veterinary Medicine, Xinjiang Agricultural University, Urumqi, China
| | - Kadirden Arken
- College of Veterinary Medicine, Xinjiang Agricultural University, Urumqi, China
| | - Caixia Shi
- College of Veterinary Medicine, Xinjiang Agricultural University, Urumqi, China
| | - Cheng Yue
- College of Veterinary Medicine, Xinjiang Agricultural University, Urumqi, China
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Tian X, Li Y, Chen Q, Chen Q. Mitogenome of the leaf-footed bug Notobitus montanus (Hemiptera: Coreidae) and a phylogenetic analysis of Coreoidea. PLoS One 2023; 18:e0281597. [PMID: 36763628 PMCID: PMC9916562 DOI: 10.1371/journal.pone.0281597] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2022] [Accepted: 01/26/2023] [Indexed: 02/11/2023] Open
Abstract
Notobitus montanus Hsiao, 1963 is a major pest of bamboos. The mitogenome of N. montanus (ON052831) was decoded using next-generation sequencing. The mitogenome, with 42.26% A, 30.54% T, 16.54% C, and 10.65% G, is 16,209 bp in size. Codon usage analysis indicated that high frequently used codons used either A or T at the third position of the codon. Amino acid usage analysis showed that leucine 2, phenylalanine, isoleucine and tyrosine were the most abundant in 31 Coreoidea species. Thirteen protein-coding genes (PCGs) were evolving under purifying selection, nad5 and cox1 had the lowest and strongest purifying selection stress, respectively. Correlation analysis showed that evolutionary rate had positive correlation with A+T content. No tandem repeat was detected in the non-coding region of N. montanus. The phylogenetic tree showed that Alydidae and Coreidae were not monophyletic. However, the topology of phylogenetic trees, based on 13 PCGs, was in accordance with that of tree based on both mitochondrial and nuclear genes but not ultraconserved element loci or combination of 13 PCGs and two rRNAs. It seems that their relationships are complex, which need revaluation and revision. The mitogenomic information of N. montanus could shed light on the evolution of Coreoidea.
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Affiliation(s)
- Xiaoke Tian
- School of Life Sciences, Guizhou Normal University, Gui’an, Guizhou, China
| | - Yongqin Li
- School of Life Sciences, Guizhou Normal University, Gui’an, Guizhou, China
| | - Qin Chen
- School of Life Sciences, Guizhou Normal University, Gui’an, Guizhou, China
| | - Qianquan Chen
- School of Life Sciences, Guizhou Normal University, Gui’an, Guizhou, China
- * E-mail:
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Ding X, Chen C, Wei J, Gao X, Zhang H, Zhao Q. Comparative mitogenomics and phylogenetic analyses of the genus Menida (Hemiptera, Heteroptera, Pentatomidae). Zookeys 2023; 1138:29-48. [PMID: 36760771 PMCID: PMC9837619 DOI: 10.3897/zookeys.1138.95626] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2022] [Accepted: 12/12/2022] [Indexed: 01/07/2023] Open
Abstract
In order to explore the genetic diversity and phylogenetic relationship of the genus Menida Motschulsky, 1861 and reveal the molecular evolution of the family Pentatomidae, subfamily Pentatominae, complete mitochondrial genomes of three species of Menida were sequenced, and the phylogenetic relationships of tribes within the subfamily Pentatominae were studied based on these results. The mitochondrial genomes of Menidamusiva (Jakovlev, 1876), M.lata Yang, 1934, and M.metallica Hsiao & Cheng, 1977 were 16,663 bp, 16,463 bp, and 16,418 bp, respectively, encoding 37 genes and including 13 protein-coding genes (PCGs), two rRNA genes, 22 tRNA genes, and a control region. The mitochondrial genome characteristics of Menida were compared and analyzed, and the phylogenetic tree of the Pentatominae was constructed based on the mitochondrial genome datasets using Bayesian inference (BI) and maximum likelihood (MI) methods. The results showed that gene arrangements, nucleotide composition, codon preference, gene overlaps, and RNA secondary structures were highly conserved within the Menida and had more similar characteristics in Pentatominae. The phylogenetic analysis shows a highly consistent topological structure based on BI and ML methods, which supported that the genus Menida belongs to the Pentatominae and is closely related to Hoplistoderini. The examined East Asian species of Menida form a monophyletic group with the internal relationships: (M.musiva + (M.lata + (M.violacea + M.metallica))). In addition, these results support the monophyly of Eysarcorini and Strachiini. Placosternum and Cappaeini are stable sister groups in the evolutionary branch of Pentatominae. The results of this study enrich the mitochondrial genome databases of Pentatominae and have significance for further elucidation of the phylogenetic relationships within the Pentatominae.
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Affiliation(s)
- Xiaofei Ding
- College of Plant Protection, Shanxi Agricultural University, Taigu 030801, Shanxi, ChinaShanxi Agricultural UniversityTaiguChina
| | - Chao Chen
- College of Plant Protection, Shanxi Agricultural University, Taigu 030801, Shanxi, ChinaShanxi Agricultural UniversityTaiguChina
| | - Jiufeng Wei
- College of Plant Protection, Shanxi Agricultural University, Taigu 030801, Shanxi, ChinaShanxi Agricultural UniversityTaiguChina
| | - Xiaoyun Gao
- College of Plant Protection, Shanxi Agricultural University, Taigu 030801, Shanxi, ChinaShanxi Agricultural UniversityTaiguChina
| | - Hufang Zhang
- Department of Biology, Xinzhou Teachers University, Xinzhou 034000, Shanxi, ChinaXinzhou Teachers UniversityXinzhouChina
| | - Qing Zhao
- College of Plant Protection, Shanxi Agricultural University, Taigu 030801, Shanxi, ChinaShanxi Agricultural UniversityTaiguChina
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10
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Jia W, Wei J, Niu M, Zhang H, Zhao Q. The complete mitochondrial genome of Aeschrocoristuberculatus and A.ceylonicus (Hemiptera, Pentatomidae) and its phylogenetic implications. Zookeys 2023; 1160:145-167. [PMID: 37206887 PMCID: PMC10189539 DOI: 10.3897/zookeys.1160.100818] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2023] [Accepted: 04/13/2023] [Indexed: 05/21/2023] Open
Abstract
Aeschrocoristuberculatus and A.ceylonicus (Hemiptera, Pentatomidae, Pentatominae) are mainly distributed in southern China, India, Myanmar, and Sri Lanka. Both species are also common agricultural pests. However, only the morphology of the genus Aeschrocoris has previously been studied, and molecular data have been lacking. In this study, the whole mitochondrial genomes of A.tuberculatus and A.ceylonicus are and annotated. The lengths of the complete mitochondrial genomes of the two species are 16,134 bp and 16,142 bp, respectively, and both contain 37 typical genes, including 13 protein-coding genes (PCGs), two ribosomal RNA genes (rRNAs), 22 transfer RNA genes (tRNAs), and a control region. The mitochondrial genome structure, gene order, nucleotide composition, and codon usage of A.tuberculatus and A.ceylonicus are consistent with those of typical Pentatomidae. Most PCGs of both species use ATN as the start codon, except atp8, nad1, and cox1, which use TTG as the start codon. cox1, cox2, and atp6 use a single T, and nad1 use TAG as the stop codon; the remaining PCGs have TAA as the stop codon. The A+T contents of the two species are 73.86% and 74.08%, respectively. All tRNAs have a typical cloverleaf structure, with the exception of trnS1, which lacks a dihydrouridine arm. The phylogenetic tree is reconstructed using the maximum-likelihood method based on the newly obtained mitochondrial genome sequences and 87 existing mitochondrial genomes of Pentatomoidea from the NCBI database and two species of Lygaeoidea as outgroups. The phylogenetic trees strongly support the following relationships: (Urostylididae + ((Acanthosomatidae + ((Cydnidae + (Dinidoridae + Tessaratomidae)) + (Scutelleridae + Plataspidae))) + Pentatomidae). This study enriches the mitochondrial genome database of Pentatomoidea and provides a reference for further phylogenetic studies.
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Affiliation(s)
- Wang Jia
- College of Plant Protection, Shanxi Agricultural University, Taigu 030801, Shanxi, ChinaShanxi Agricultural UniversityTaiguChina
| | - Jiufeng Wei
- College of Plant Protection, Shanxi Agricultural University, Taigu 030801, Shanxi, ChinaShanxi Agricultural UniversityTaiguChina
| | - Minmin Niu
- College of Plant Protection, Shanxi Agricultural University, Taigu 030801, Shanxi, ChinaShanxi Agricultural UniversityTaiguChina
| | - Hufang Zhang
- Department of Biology, Xinzhou Teachers University, Xinzhou 034000, Shanxi, ChinaXinzhou Teachers UniversityXinzhouChina
| | - Qing Zhao
- College of Plant Protection, Shanxi Agricultural University, Taigu 030801, Shanxi, ChinaShanxi Agricultural UniversityTaiguChina
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11
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Lian D, Wei J, Chen C, Niu M, Zhang H, Zhao Q. Comparative analysis and phylogeny of mitochondrial genomes of Pentatomidae (Hemiptera: Pentatomoidea). Front Genet 2022; 13:1045193. [PMID: 36437937 PMCID: PMC9692006 DOI: 10.3389/fgene.2022.1045193] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2022] [Accepted: 10/31/2022] [Indexed: 10/13/2023] Open
Abstract
The Phyllocephalini is a group of herbivorous insects in Pentatomidae, which lack distinctive morphological characteristics and systematic studies. Up to now, there are only two complete mitochondrial genomes of Phyllocephalini have been reported. In this study, we sequenced and analyzed the complete mitochondrial genomes of three Phyllocephalini species, Gonopsis coccinea, Gonopsimorpha nigrosignata, and Chalcopis glandulosus, which were 16,534, 16,531, and 16,534 bp in length, respectively. The mitochondrial genomes contained 37 genes, including 13 protein-coding genes, two rRNA genes, 22 tRNA genes, and a control region. The gene arrangement was consistent with that of the putative ancestral insect, with no rearrangement. The cox1 gene of Pentatomidae showed the lowest evolutionary rate among the protein-coding genes, the mean genetic distance of species, genera, and subfamilies of Pentatomidae increased hierarchically based on cox1 gene. The 16S rRNA of Pentatomidae was more conserved than 12S rRNA in sequence and secondary structure. All tRNAs could be folded into a typical cloverleaf structure except trnS1. The stem region was more conserved than the loop region in the secondary structure of tRNAs within Pentatomidae. Gonopsis coccinea and Gonopsimorpha nigrosignata had one type of tandem repetition unit in the control region, while C. glandulosus had two types. The heterogeneity analysis of Pentatomidae showed that Phyllocephalinae was the most heterogeneous. Phylogenetic trees based on the newly obtain mitochondrial genomes along with other 50 mitochondrial genomes of Pentatomidae using Bayesian Inference and Maximum Likelihood strongly supported the following three relationships: (((Anaxilaus + (Plautia + Glaucias)) + (Nezara + Palomena)) + (Eysarcorini + Carpocorini)), (Hoplistoderini + (Menidini + Asopinae)), and ((Sephelini + Halyini) + (Caystrini + (Cappaeini + (Placosternum + Phyllocephalini)))). The relationships within Phyllocephalini were (Chalcopis + (Dalsira + (Gonopsimorpha + Gonopsis))). Our results provide valuable molecular data for further phylogenetic analyses of Pentatomidae.
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Affiliation(s)
- Dan Lian
- College of Plant Protection, Shanxi Agricultural University, Taigu, China
| | - Jiufeng Wei
- College of Plant Protection, Shanxi Agricultural University, Taigu, China
| | - Chao Chen
- College of Plant Protection, Shanxi Agricultural University, Taigu, China
| | - Minmin Niu
- College of Plant Protection, Shanxi Agricultural University, Taigu, China
| | - Hufang Zhang
- Department of Biology, Xinzhou Teachers University, Xinzhou, China
| | - Qing Zhao
- College of Plant Protection, Shanxi Agricultural University, Taigu, China
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12
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Dong X, Wang K, Tang Z, Zhang Y, Yi W, Xue H, Zheng C, Bu W. Phylogeny of Coreoidea based on mitochondrial genomes show the paraphyly of Coreidae and Alydidae. ARCHIVES OF INSECT BIOCHEMISTRY AND PHYSIOLOGY 2022; 110:e21878. [PMID: 35181948 DOI: 10.1002/arch.21878] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/24/2021] [Revised: 01/23/2022] [Accepted: 01/26/2022] [Indexed: 06/14/2023]
Abstract
Coreoidea (Insecta: Hemiptera: Heteroptera) is a widely distributed and agriculturally important bugs. However, the phylogeny of Coreoidea lacked consensus on higher-level relationships and several studies by comparative morphological characters and molecular data suggested the non-monophyly of two families: Coreidae and Alydidae. The mitochondrial genome (mitogenome) has long been thought to be a significant marker to understand phylogenetic relationships, but the mitogenome in Alydidae is scarce to date. In the present study, we gathered the mitogenomes of 28 species from four families of Coreoidea excluding Hyocephalidae (Alydidae, Coreidae, Rhopalidae, and Stenocephalidae), including four newly sequenced mitogenomes of Alydidae, and conducted mitogenomic organization and phylogenetic studies. We used maximum likelihood and Bayesian inference methods to infer the higher-level phylogeny from the perspective of mitogenomes, primarily to investigate the phylogenetic relationship betweeen Coreidae and Alydidae. We add evidence that neither Alydidae nor Coreidae are monophyletic based on mitogenomes. Newly sequenced mitogenomes of Alydidae have traditional gene structure and gene rearrangement was not found. Alydinae was always recovered as closely related to Pseudophloeinae of the coreid subfamily with high support. The placement of the coreid subfamily Hydarinae and alydid subfamily Micrelytrinae are unstable depending on approach used. In terms of the length and nucleotide composition of the protein coding genes in mitogenomes, Pseudophloeinae and Hydarinae of coreid were more similar to Alydidae. The unsettled classification issues of Coreidae and Alydidae by mitogenomes were demonstrated in this work, indicating that further study is needed.
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Affiliation(s)
- Xue Dong
- Institute of Entomology, College of Life Sciences, Nankai University, Tianjin, China
| | - Kaibin Wang
- Institute of Entomology, College of Life Sciences, Nankai University, Tianjin, China
| | - Zechen Tang
- Institute of Entomology, College of Life Sciences, Nankai University, Tianjin, China
| | - Yaoyao Zhang
- Institute of Entomology, College of Life Sciences, Nankai University, Tianjin, China
| | - Wenbo Yi
- Department of Biology, Xinzhou Teachers University, Xinzhou, Shanxi, China
| | - Huaijun Xue
- Institute of Entomology, College of Life Sciences, Nankai University, Tianjin, China
| | - Chenguang Zheng
- Institute of Entomology, College of Life Sciences, Nankai University, Tianjin, China
| | - Wenjun Bu
- Institute of Entomology, College of Life Sciences, Nankai University, Tianjin, China
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13
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Phylogenomic analysis with improved taxon sampling corroborates an Alydidae + Hydarinae + Pseudophloeinae clade (Heteroptera: Coreoidea: Alydidae, Coreidae). ORG DIVERS EVOL 2022. [DOI: 10.1007/s13127-022-00548-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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14
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Mu YL, Zhang CH, Zhang YJ, Yang L, Chen XS. Characterizing the Complete Mitochondrial Genome of Arma custos and Picromerus lewisi (Hemiptera: Pentatomidae: Asopinae) and Conducting Phylogenetic Analysis. JOURNAL OF INSECT SCIENCE (ONLINE) 2022; 22:6510058. [PMID: 35039857 PMCID: PMC8763613 DOI: 10.1093/jisesa/ieab105] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/16/2021] [Indexed: 05/30/2023]
Abstract
We characterized the mitochondrial genome (mitogenome) and conducted phylogenetic analyses of 48 Hemiptera species by sequencing and analyzing the mitogenome of Arma custos (Fabricius) and Picromerus lewisi (Scott). The complete mitogenomes of the two predators were 16,024 bp and 19,587 bp in length, respectively, and it contained 37 classical genes, including 13 protein-coding genes (PCGs), 2 ribosomal RNA genes (rRNAs), and 22 transfer RNA genes (tRNAs), and a control region. Most PCGs in these predators use ATN as the start codon. This research revealed that the genes of the two natural enemy species have an A + T content of 75.40% and all tRNAs have a typical cloverleaf structure, with the exception of trnS1, which lacks a dihydrouridine arm. This is the first study to compare the mitochondrial genetic structure of two predatory insects; the mitochondrial genetic structure of individual predatory insects has been sequenced in previous studies. Here, phylogenetic analysis on the basis of amino acid and nucleotide sequences of 13 mitochondrial PCGs using Bayesian inference and maximum likelihood methods were conducted to generate similar tree topologies, which suggested that the two predators with close genetic relationships belong to Asopinae subfamily. Furthermore, the monophyly of the Pentatomoidea superfamily is well accepted despite limited taxon and species sampling. Finally, their complete mitogenome provided data to establish a predator-prey food web, which is the foundation of effective pest management. Our results also enhanced the database of natural enemy insects.
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Affiliation(s)
- Yin-Lin Mu
- Guizhou Provincial Key Laboratory for Agricultural Pest Management of the Mountainous Regions, Institute of Entomology, Guizhou University, Guiyang, Guizhou 550025, China
- The Provincial Special Key Laboratory for Development and Utilization of Insect Resources of Guizhou, Guizhou University, Guiyang, Guizhou 550025, China
| | - Chang-Hua Zhang
- Guizhou Tobacco Company Zunyi Branch, Zunyi, Guizhou 563000, China
| | - Yu-Jie Zhang
- College of Agriculture and Biotechnology, Hunan University of Humanities, Science and Technology, Loudi, Hunan 417000, China
| | - Lin Yang
- Guizhou Provincial Key Laboratory for Agricultural Pest Management of the Mountainous Regions, Institute of Entomology, Guizhou University, Guiyang, Guizhou 550025, China
- The Provincial Special Key Laboratory for Development and Utilization of Insect Resources of Guizhou, Guizhou University, Guiyang, Guizhou 550025, China
| | - Xiang-Sheng Chen
- Guizhou Provincial Key Laboratory for Agricultural Pest Management of the Mountainous Regions, Institute of Entomology, Guizhou University, Guiyang, Guizhou 550025, China
- The Provincial Special Key Laboratory for Development and Utilization of Insect Resources of Guizhou, Guizhou University, Guiyang, Guizhou 550025, China
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15
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Xu S, Wu Y, Liu Y, Zhao P, Chen Z, Song F, Li H, Cai W. Comparative Mitogenomics and Phylogenetic Analyses of Pentatomoidea (Hemiptera: Heteroptera). Genes (Basel) 2021; 12:1306. [PMID: 34573288 PMCID: PMC8471585 DOI: 10.3390/genes12091306] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2021] [Revised: 08/23/2021] [Accepted: 08/24/2021] [Indexed: 01/04/2023] Open
Abstract
Pentatomoidea is the largest superfamily of Pentatomomorpha; however, the phylogenetic relationships among pentatomoid families have been debated for a long time. In the present study, we gathered the mitogenomes of 55 species from eight common families (Acanthosomatidae, Cydnidae, Dinidoridae, Scutelleridae, Tessaratomidae, Plataspidae, Urostylididae and Pentatomidae), including 20 newly sequenced mitogenomes, and conducted comparative mitogenomic studies with an emphasis on the structures of non-coding regions. Heterogeneity in the base composition, and contrasting evolutionary rates were encountered among the mitogenomes in Pentatomoidea, especially in Urostylididae, which may lead to unstable phylogenetic topologies. When the family Urostylididae is excluded in taxa sampling or the third codon positions of protein coding genes are removed, phylogenetic analyses under site-homogenous models could provide more stable tree topologies. However, the relationships between families remained the same in all PhyloBayes analyses under the site-heterogeneous mixture model CAT + GTR with different datasets and were recovered as (Cydnidae + (((Tessaratomidae + Dinidoridae) + (Plataspidae + Scutelleridae)) + ((Acanthosomatidae + Urostylididae) + Pentatomidae)))). Our study showed that data optimizing strategies after heterogeneity assessments based on denser sampling and the use of site-heterogeneous mixture models are essential for further analysis of the phylogenetic relationships of Pentatomoidea.
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Affiliation(s)
- Shiwen Xu
- Department of Entomology and MOA Key Lab of Pest Monitoring and Green Management, College of Plant Protection, China Agricultural University, Beijing 100193, China; (S.X.); (Y.W.); (Y.L.); (Z.C.); (F.S.); (H.L.)
| | - Yunfei Wu
- Department of Entomology and MOA Key Lab of Pest Monitoring and Green Management, College of Plant Protection, China Agricultural University, Beijing 100193, China; (S.X.); (Y.W.); (Y.L.); (Z.C.); (F.S.); (H.L.)
| | - Yingqi Liu
- Department of Entomology and MOA Key Lab of Pest Monitoring and Green Management, College of Plant Protection, China Agricultural University, Beijing 100193, China; (S.X.); (Y.W.); (Y.L.); (Z.C.); (F.S.); (H.L.)
| | - Ping Zhao
- Key Laboratory of Environment Change and Resources Use in Beibu Gulf (Ministry of Education) and Guangxi Key Laboratory of Earth Surface Processes and Intelligent Simulation, Nanning Normal University, Nanning 530001, China;
| | - Zhuo Chen
- Department of Entomology and MOA Key Lab of Pest Monitoring and Green Management, College of Plant Protection, China Agricultural University, Beijing 100193, China; (S.X.); (Y.W.); (Y.L.); (Z.C.); (F.S.); (H.L.)
| | - Fan Song
- Department of Entomology and MOA Key Lab of Pest Monitoring and Green Management, College of Plant Protection, China Agricultural University, Beijing 100193, China; (S.X.); (Y.W.); (Y.L.); (Z.C.); (F.S.); (H.L.)
| | - Hu Li
- Department of Entomology and MOA Key Lab of Pest Monitoring and Green Management, College of Plant Protection, China Agricultural University, Beijing 100193, China; (S.X.); (Y.W.); (Y.L.); (Z.C.); (F.S.); (H.L.)
| | - Wanzhi Cai
- Department of Entomology and MOA Key Lab of Pest Monitoring and Green Management, College of Plant Protection, China Agricultural University, Beijing 100193, China; (S.X.); (Y.W.); (Y.L.); (Z.C.); (F.S.); (H.L.)
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16
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Hemala V, Kment P, Tihlaříková E, Neděla V, Malenovský I. External structures of the metathoracic scent gland efferent system in the true bug superfamily Pyrrhocoroidea (Hemiptera: Heteroptera: Pentatomomorpha). ARTHROPOD STRUCTURE & DEVELOPMENT 2021; 63:101058. [PMID: 34034200 DOI: 10.1016/j.asd.2021.101058] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/18/2021] [Revised: 04/21/2021] [Accepted: 04/26/2021] [Indexed: 06/12/2023]
Abstract
Pyrrhocoroidea represents an important group of true bugs (Insecta: Hemiptera: Heteroptera) which includes fire bugs, cotton stainers and other taxa widely used in experimental studies or known as pests. However, the morphology and phylogeny of Pyrrhocoroidea have been only poorly studied so far. Here, structures of the external scent efferent system of the metathoracic scent glands are examined in 64 out of 71 currently valid genera of Pyrrhocoroidea and scanning electron micrographs are provided for most taxa. Several characters are revealed which define each of the three higher taxa within Pyrrhocoroidea: Larginae (small auriculate peritreme lacking manubrium and median furrow; metathoracic spiracle never surrounded by evaporatorium), Physopeltinae (large, widely open ostiole; large peritremal disc with manubrium [new term], lacking median furrow; mace-like mycoid filter processes of equal shape and size on both anterior and posterior margins of metathoracic spiracle), and Pyrrhocoridae (elongate auriculate peritreme with deep median furrow). Within Pyrrhocoridae, three main types (A, B and C) of the external scent efferent system are distinguished, differring in the amount of reductions. The findings are interpreted in the context of phylogenetic hypotheses available for Pyrrhocoroidea and their close relatives, Coreoidea and Lygaeoidea. An updated identification key to the families and subfamilies of Pyrrhocoroidea applicable for both sexes is provided.
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Affiliation(s)
- Vladimír Hemala
- Department of Botany and Zoology, Faculty of Science, Masaryk University, Kotlářská 2, 611 37, Brno, Czech Republic.
| | - Petr Kment
- Department of Entomology, National Museum, Cirkusová 1740, 193 00, Prague, Horní Počernice, Czech Republic.
| | - Eva Tihlaříková
- Institute of Scientific Instruments, Czech Academy of Sciences, Královopolská 147, 612 64, Brno, Czech Republic.
| | - Vilém Neděla
- Institute of Scientific Instruments, Czech Academy of Sciences, Královopolská 147, 612 64, Brno, Czech Republic.
| | - Igor Malenovský
- Department of Botany and Zoology, Faculty of Science, Masaryk University, Kotlářská 2, 611 37, Brno, Czech Republic.
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17
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Li R, Li M, Yan J, Bai M, Zhang H. Five Mitochondrial Genomes of the Genus Eysarcoris Hahn, 1834 with Phylogenetic Implications for the Pentatominae (Hemiptera: Pentatomidae). INSECTS 2021; 12:insects12070597. [PMID: 34209052 PMCID: PMC8306050 DOI: 10.3390/insects12070597] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/04/2021] [Revised: 06/27/2021] [Accepted: 06/28/2021] [Indexed: 11/30/2022]
Abstract
Simple Summary Pentatominae is the largest subfamily in the Pentatomidae, and most of its species are considered important agricultural pests. The phylogenetic relationships of tribes within Pentatominae remain controversial despite the fact that many studies have been performed using various molecular markers. In this study, five mitogenomes of the genus Eysarcoris were sequenced and analyzed, and the phylogenetic relationships of tribes within Pentatominae were reconstructed. The gene arrangement of the five mitochondrial genomes were found to be conserved and identical to other heteropteran mitogenomes. Differences in start codon usage and tandem repeats within control regions were found between E. gibbosus and the other four Eysarcoris species. In addition, the phylogenetic analyses showed that E. gibbosus is the first diverging clade within Eysarcorini. The results support the proposal to transfer E. gibbosus to the Stagonomus, another genus of Eysarcorini. Our results clarified the phylogenetic relationships among tribes of Pentatominae and laid a foundation for the further studies of Pentatominae. Abstract Four complete mitogenomes of Eysarcoris rosaceus, E. montivagus, E. gibbosus, E. annamita and one near-complete mitochondrial genome of E. ventralis were sequenced and used to explore the phylogenetic relationships of tribes within the subfamily Pentatominae. The mitogenomes range from 15,422 to 16,043 base pairs (bp) in length and encode 37 genes, including 13 protein-coding genes (PCGs), two rRNA genes, 22 tRNA genes (21 in E. ventralis), and a control region. Similar to other heteropteran species, the AT contents of the sequenced species were higher than their GC contents. The most frequently used start/stop codon was ATN/TAA. GTG was only found in atp6 and atp8 of E. gibbosus. All transfer RNA genes (tRNAs) exhibit the typical cloverleaf secondary structure, except for the trnS1 and trnV, which lacks the stem of the DHU arm. The length and copy number of repeat units were conserved within Eysarcoris, with the exception of E. gibbosus. Phylogenetic analyses based on mitogenomes using both maximum likelihood (ML) and Bayesian inference (BI) methods strongly supported the relationship among tribes within Pentatominae and confirmed that Graphosoma should be an intermediate lineage of Pentatominae. The relationship between Eysarcoris and Carbula was strongly supported and combined with our previous geometric morphometrics and chromosomal studies, suggest the Eysarcoris should belong to the tribe Eyasrcorini. This work will help to enhance our understanding of mitochondrial genomic evolution and phylogenetic relationships in Pentatominae.
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Affiliation(s)
- Rongrong Li
- Laboratory of Insect Evolution, Taiyuan Normal University, Jinzhong 030619, China
| | - Min Li
- Laboratory of Insect Evolution, Taiyuan Normal University, Jinzhong 030619, China
| | - Jiang Yan
- Laboratory of Insect Evolution, Taiyuan Normal University, Jinzhong 030619, China
| | - Ming Bai
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing 100101, China
| | - Hufang Zhang
- Xinzhou Teachers University, Xinzhou 034000, China
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18
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Zhao L, Wei* J, Zhao W, Chen C, Gao X, Zhao Q. The complete mitochondrial genome of Pentatoma rufipes (Hemiptera, Pentatomidae) and its phylogenetic implications. Zookeys 2021; 1042:51-72. [PMID: 34163290 PMCID: PMC8206063 DOI: 10.3897/zookeys.1042.62302] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2020] [Accepted: 05/24/2021] [Indexed: 11/15/2022] Open
Abstract
Pentatoma rufipes (Linnaeus, 1758) is an important agroforestry pest widely distributed in the Palaearctic region. In this study, we sequence and annotate the complete mitochondrial genome of P. rufipes and reconstruct the phylogenetic trees for Pentatomoidea using existing data for eight families published in the National Center for Biotechnology Information database. The mitogenome of P. rufipes is 15,887-bp-long, comprising 13 protein-coding genes, 22 transfer RNA genes, two ribosomal RNA genes, and a control region, with an A+T content of 77.7%. The genome structure, gene order, nucleotide composition, and codon usage of the mitogenome of P. rufipes were consistent with those of typical Hemiptera insects. Among the protein-coding genes of Pentatomoidea, the evolutionary rate of ATP8 was the fastest, and COX1 was found to be the most conservative gene in the superfamily. Substitution saturation assessment indicated that neither transition nor transversion substitutions were saturated in the analyzed datasets. Phylogenetic analysis using the Bayesian inference method showed that P. rufipes belonged to Pentatomidae. The node support values based on the dataset concatenated from protein-coding and RNA genes were the highest. Our results enrich the mitochondrial genome database of Pentatomoidea and provide a reference for further studies of phylogenetic systematics.
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Affiliation(s)
- Ling Zhao
- College of Plant Protection, Shanxi Agricultural University, Taigu 030801, Shanxi, ChinaShanxi Agricultural UniversityTaiguChina
| | - Jiufeng Wei*
- College of Plant Protection, Shanxi Agricultural University, Taigu 030801, Shanxi, ChinaShanxi Agricultural UniversityTaiguChina
| | - Wanqing Zhao
- Department of Biology, Xinzhou Teachers University, Xinzhou 034000, Shanxi, ChinaXinzhou Teachers UniversityXinzhouChina
| | - Chao Chen
- College of Plant Protection, Shanxi Agricultural University, Taigu 030801, Shanxi, ChinaShanxi Agricultural UniversityTaiguChina
| | - Xiaoyun Gao
- College of Plant Protection, Shanxi Agricultural University, Taigu 030801, Shanxi, ChinaShanxi Agricultural UniversityTaiguChina
| | - Qing Zhao
- College of Plant Protection, Shanxi Agricultural University, Taigu 030801, Shanxi, ChinaShanxi Agricultural UniversityTaiguChina
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19
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Bianchi FM, Gonçalves LT. Borrowing the Pentatomomorpha tome from the DNA barcode library: Scanning the overall performance of
cox1
as a tool. J ZOOL SYST EVOL RES 2021. [DOI: 10.1111/jzs.12476] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Filipe Michels Bianchi
- Laboratório de Entomologia Sistemática Departamento de Zoologia Universidade Federal do Rio Grande do Sul Porto Alegre Brazil
- Programa de Pós‐Graduação em Biologia Animal Universidade Federal do Rio Grande do Sul Porto Alegre Brazil
| | - Leonardo Tresoldi Gonçalves
- Laboratório de Drosophila Departamento de Genética Universidade Federal do Rio Grande do Sul Porto Alegre Brazil
- Programa de Pós‐Graduação em Genética e Biologia Molecular Universidade Federal do Rio Grande do Sul Porto Alegre Brazil
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20
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Yu P, Zhou L, Yang WT, Miao LJ, Li Z, Zhang XJ, Wang Y, Gui JF. Comparative mitogenome analyses uncover mitogenome features and phylogenetic implications of the subfamily Cobitinae. BMC Genomics 2021; 22:50. [PMID: 33446100 PMCID: PMC7809818 DOI: 10.1186/s12864-020-07360-w] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2020] [Accepted: 12/29/2020] [Indexed: 12/22/2022] Open
Abstract
BACKGROUND Loaches of Cobitinae, widely distributed in Eurasian continent, have high economic, ornamental and scientific value. However, the phylogeny of Cobitinae fishes within genera or family level remains complex and controversial. Up to now, about 60 Cobitinae mitogenomes had been deposited in GenBank, but their integrated characteristics were not elaborated. RESULTS In this study, we sequenced and analyzed the complete mitogenomes of a female Cobits macrostigma. Then we conducted a comparative mitogenome analysis and revealed the conserved and unique characteristics of 58 Cobitinae mitogenomes, including C. macrostigma. Cobitinae mitogenomes display highly conserved tRNA secondary structure, overlaps and non-coding intergenic spacers. In addition, distinct base compositions were observed among different genus and significantly negative linear correlation between AT% and AT-skew were found among Cobitinae, genus Cobitis and Pangio mitogenomes, respectively. A specific 3 bp insertion (GCA) in the atp8-atp6 overlap was identified as a unique feature of loaches, compared to other Cypriniformes fish. Additionally, all protein coding genes underwent a strong purifying selection. Phylogenetic analysis strongly supported the paraphyly of Cobitis and polyphyly of Misgurnus. The strict molecular clock predicted that Cobitinae might have split into northern and southern lineages in the late Eocene (42.11 Ma), furthermore, mtDNA introgression might occur (14.40 Ma) between ancestral species of Cobitis and ancestral species of Misgurnus. CONCLUSIONS The current study represents the first comparative mitogenomic and phylogenetic analyses within Cobitinae and provides new insights into the mitogenome features and evolution of fishes belonging to the cobitinae family.
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Affiliation(s)
- Peng Yu
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, the Innovation Academy of Seed Design, Chinese Academy of Sciences, Wuhan, 430072, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Li Zhou
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, the Innovation Academy of Seed Design, Chinese Academy of Sciences, Wuhan, 430072, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Wen-Tao Yang
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, the Innovation Academy of Seed Design, Chinese Academy of Sciences, Wuhan, 430072, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Li-Jun Miao
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, the Innovation Academy of Seed Design, Chinese Academy of Sciences, Wuhan, 430072, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Zhi Li
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, the Innovation Academy of Seed Design, Chinese Academy of Sciences, Wuhan, 430072, China
| | - Xiao-Juan Zhang
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, the Innovation Academy of Seed Design, Chinese Academy of Sciences, Wuhan, 430072, China
| | - Yang Wang
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, the Innovation Academy of Seed Design, Chinese Academy of Sciences, Wuhan, 430072, China.
- University of Chinese Academy of Sciences, Beijing, 100049, China.
| | - Jian-Fang Gui
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, the Innovation Academy of Seed Design, Chinese Academy of Sciences, Wuhan, 430072, China.
- University of Chinese Academy of Sciences, Beijing, 100049, China.
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Morphological diversity of the metathoracic spiracle in the Lygaeoidea (Hemiptera: Heteroptera). Micron 2020; 137:102878. [PMID: 32599357 DOI: 10.1016/j.micron.2020.102878] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2019] [Revised: 03/23/2020] [Accepted: 04/28/2020] [Indexed: 11/22/2022]
Abstract
Spiracles are the openings in the exoskeleton of insects through which air enters into the respiratory system that is formed by a series of tubes called tracheae. They are primarily located on the abdomen, but can also occur on the thorax, including the metathorax. An insect metathoracic spiracle is usually composed of an external opening and a more internal filter apparatus. We propose new terminology for these structures, and we explore the value in their use in taxonomic and phylogenetic studies within the true bug infraorder Pentatomomorpha, with emphasis on the superfamily Lygaeoidea (Insecta: Hemiptera: Heteroptera). These structures were studied using scanning electron microscopy. Two types of metathoracic spiracle external openings were recognized: a narrow opening (type N), which is slit-like; and a wide opening (type W), with internal fine structures located between the mesothoracic and metathoracic margins of the interpleural suture clearly visible. The filter apparatus in the Pentatomomorpha consists of modified mushroom bodies of the metathoracic scent gland evaporatorium, for which the term mycoid filter processes is proposed. Eight different types of mycoid filter processes, and an unmodified microsculpture type (a type with usual cuticular microsculpture) and filter setae can be found on the anterior or posterior margins of the metathoracic spiracle. We believe the wide opening (type W) to be the plesiomorphic character state in the Pentatomomorpha, with multiple, independent transformations leading to the narrow opening in Lygaeoidea. Considerable variability in the structure of the spiracle opening (in Lygaeoidea), and in the structure of the mycoid filter processes (in Pentatomomorpha) was detected. Overall, we found the morphology of these structures to be of limited value concerning the taxonomy or for determining phylogenetic relationships of the higher taxa (families) of Pentatomomorpha, but they may be useful as additional evidence for taxonomic and phylogenetic studies at the generic and perhaps the tribal levels.
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The comparative morphology of adult pregenital abdominal ventrites and trichobothria in Pyrrhocoroidea (Hemiptera: Heteroptera: Pentatomomorpha). ZOOL ANZ 2020. [DOI: 10.1016/j.jcz.2019.11.006] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
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Zhao W, Zhao Q, Li M, Wei J, Zhang X, Zhang H. Comparative Mitogenomic Analysis of the Eurydema Genus in the Context of Representative Pentatomidae (Hemiptera: Heteroptera) Taxa. JOURNAL OF INSECT SCIENCE (ONLINE) 2019; 19:20. [PMID: 31841604 PMCID: PMC6913905 DOI: 10.1093/jisesa/iez122] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/04/2019] [Indexed: 05/30/2023]
Abstract
The family Pentatomidae, the largest within the superfamily Pentatomoidae, comprises about 5,000 species; many of which are economically important pests. Although the phylogeny of Pentatomidae species has been studied using various molecular markers, their phylogenetic relationships remain controversial. Recently, mitochondrial genomes (mitogenomes) have been extensively employed to examine the phylogenetics and evolution of different insects, and in this study, we sequenced complete/near-complete mitochondrial genomes from five shield bug species of Eurydema to gain a better understanding of phylogenetic relationships in the Pentatomidae. The five mitogenomes ranged in length from 15,500 to 16,752 bp and comprised 13 protein-coding genes (PCGs), 22 transfer RNAs (tRNAs), 2 ribosomal RNAs (rRNAs), and a control region. We compared mitogenomic characteristics of the Pentatomidae and constructed phylogenetic trees using Bayesian inference and maximum likelihood methods. Our results showed that gene arrangements, base composition, start/stop codons, gene overlaps, and RNA structures were conserved within the Pentatomidae and that congeneric species shared more characteristics. Saturation and heterogeneity analyses revealed that our PCGs and PCGRNA datasets were valid for phylogenetic analysis. Phylogenetic analyses showed consistent topologies based on BI and ML methods. These analyses strongly supported that Eurydema species belong to the tribe Strachiini, and formed a sister group with Pentatomini. The relationships among Eurydema species were shown to be consistent with their morphological features. (Strachiini + Pentatomini) was found to be a stable sibling of the clade comprising Cappaeini, Graphosomini, and Carpocorini. Furthermore, our results indicated that Graphosoma rubrolineatum (Heteroptera: Pentatomidae) belongs to the Pentatominae and not the Podopinae.
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Affiliation(s)
- Wanqing Zhao
- Department of Biology, Xinzhou Teachers University, Xinzhou, China
| | - Qing Zhao
- Department of Entomology, Shanxi Agricultural University, Taigu, China
| | - Min Li
- Department of Biology, Taiyuan Normal University, Taiyuan, China
| | - Jiufeng Wei
- Department of Entomology, Shanxi Agricultural University, Taigu, China
| | - Xianhong Zhang
- Department of Entomology, Shanxi Agricultural University, Taigu, China
| | - Hufang Zhang
- Department of Biology, Xinzhou Teachers University, Xinzhou, China
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The mitochondrial genome of the brown citrus aphid Aphis (Toxoptera) citricidus: Insights into the repeat regions in aphids and phylogenetic implications. Int J Biol Macromol 2019; 136:531-539. [DOI: 10.1016/j.ijbiomac.2019.06.101] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2019] [Revised: 04/11/2019] [Accepted: 06/14/2019] [Indexed: 01/13/2023]
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Zhao Q, Chen C, Liu J, Wei J. Characterization of the complete mitochondrial genome of Eysarcoris aeneus (Heteroptera: Pentatomidae), with its phylogenetic analysis. Mitochondrial DNA B Resour 2019; 4:2096-2097. [PMID: 33365424 PMCID: PMC7687418 DOI: 10.1080/23802359.2019.1622465] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022] Open
Abstract
In this study, the complete 16,065 bp mitochondrial genome of Eysarcoris aeneus was determined from China using next-generation sequencing technology. It consists of 13 protein-coding genes, 22 tRNAs, 2 ribosomal RNAs, and a control region. Among them, 23 genes were located on J-strand, and the other genes (nad5, nad4, nad4L, nad1, trnQ, trnC, trnY, trnF, trnH, trnP, trnL1, trnV, 12S rRNA, and 16S rRNA) were located on the N-strand. The phylogenetic tree was constructed using MrBayes method based on the 13 protein-coding genes (PCGs) showed the present species clustered within the Pentatomidae. The complete mitogenome data would be useful for further study of Pentatomoidea and Pentatomomorpha.
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Affiliation(s)
- Qing Zhao
- Department of Entomology, Shanxi Agricultural University, Taigu, Shanxi, P. R. China
| | - Chao Chen
- Department of Environment Science and Engineering, Taiyuan University of Technology, Taiyuan, Shanxi, P. R. China
| | - Juan Liu
- College of arts and sciences, Shanxi Agricultural University, Taigu, Shanxi, P. R. China
| | - Jiufeng Wei
- Department of Entomology, Shanxi Agricultural University, Taigu, Shanxi, P. R. China
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Forthman M, Miller CW, Kimball RT. Phylogenomic analysis suggests Coreidae and Alydidae (Hemiptera: Heteroptera) are not monophyletic. ZOOL SCR 2019. [DOI: 10.1111/zsc.12353] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Affiliation(s)
- Michael Forthman
- Entomology & Nematology Department University of Florida Gainesville Florida
| | - Christine W. Miller
- Entomology & Nematology Department University of Florida Gainesville Florida
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Yu P, Zhou L, Zhou XY, Yang WT, Zhang J, Zhang XJ, Wang Y, Gui JF. Unusual AT-skew of Sinorhodeus microlepis mitogenome provides new insights into mitogenome features and phylogenetic implications of bitterling fishes. Int J Biol Macromol 2019; 129:339-350. [PMID: 30738158 DOI: 10.1016/j.ijbiomac.2019.01.200] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2018] [Revised: 01/17/2019] [Accepted: 01/29/2019] [Indexed: 12/25/2022]
Abstract
Sinorhodeus microlepis (S. microlepis) is recently described as a new species and represents a new genus Sinorhodeu of the subfamily Acheilognathinae. In this study, we first sequenced the complete mitogenome of S. microlepis and compared with the other 29 bitterling mitogenomes. The S. microlepis mitogenome is 16,591 bp in length and contains 37 genes. Gene distribution pattern is identical among 30 bitterling mitogenomes. A significant linear correlation between A+T% and AT-skew were found among 29 bitterling mitogenomes, except S. microlepis shows unusual AT-skew with slightly negative in tRNAs and PCGs. Bitterling mitogenomes exhibit highly conserved usage bias of start codon, relative synonymous codons and amino acids, overlaps and non-coding intergenic spacers. Phylogenetic trees constructed by 13 PCGs strongly support the polyphyly of the genus Acheilognathus and the paraphyly of Rhodeus and Tanakia. Together with the unusual characters of S. microlepis mitogenomes and phylogenetic trees, S. microlepis should be a sister species to the genus Rhodeu that might diverge about 13.69 Ma (95% HPD: 12.96-14.48 Ma).
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Affiliation(s)
- Peng Yu
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, The Innovation Academy of Seed Design, Chinese Academy of Sciences, Wuhan 430072, China; University of Chinese Academy of Sciences, Beijing 100049, China; College of Animal Science and Technology, Anhui Agricultural University, Hefei 230036, China
| | - Li Zhou
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, The Innovation Academy of Seed Design, Chinese Academy of Sciences, Wuhan 430072, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Xiao-Ya Zhou
- College of Animal Science and Technology, Anhui Agricultural University, Hefei 230036, China
| | - Wen-Tao Yang
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, The Innovation Academy of Seed Design, Chinese Academy of Sciences, Wuhan 430072, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Jun Zhang
- College of Animal Science and Technology, Anhui Agricultural University, Hefei 230036, China
| | - Xiao-Juan Zhang
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, The Innovation Academy of Seed Design, Chinese Academy of Sciences, Wuhan 430072, China
| | - Yang Wang
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, The Innovation Academy of Seed Design, Chinese Academy of Sciences, Wuhan 430072, China; University of Chinese Academy of Sciences, Beijing 100049, China.
| | - Jian-Fang Gui
- State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, The Innovation Academy of Seed Design, Chinese Academy of Sciences, Wuhan 430072, China; University of Chinese Academy of Sciences, Beijing 100049, China.
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Zhao L, Wei J, Lu Y, Wang B, Hao S, Zhao Q. The complete mitochondrial genome of Menida violacea (Hemiptera: Pentatomidae) and its phylogenetic implication. Mitochondrial DNA B Resour 2019. [DOI: 10.1080/23802359.2019.1617055] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022] Open
Affiliation(s)
- Ling Zhao
- Department of Entomology, Shanxi Agricultural University, Taigu, China
| | - Jiufeng Wei
- Department of Entomology, Shanxi Agricultural University, Taigu, China
| | - Yunyun Lu
- Department of Entomology, Shanxi Agricultural University, Taigu, China
| | - Bingwei Wang
- Department of Entomology, Shanxi Agricultural University, Taigu, China
| | - Shangji Hao
- Department of Entomology, Shanxi Agricultural University, Taigu, China
| | - Qing Zhao
- Department of Entomology, Shanxi Agricultural University, Taigu, China
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