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Zhang L, Dietrich CH, Xu Y, Yang Z, Chen M, Pham TH, Le CCV, Qiao L, Matsumura M, Qin D. Unraveling the hierarchical genetic structure of tea green leafhopper, Matsumurasca onukii, in East Asia based on SSRs and SNPs. Ecol Evol 2022; 12:e9377. [PMID: 36203634 PMCID: PMC9526121 DOI: 10.1002/ece3.9377] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2022] [Revised: 08/30/2022] [Accepted: 09/12/2022] [Indexed: 12/02/2022] Open
Abstract
Matsumurasca onukii (Matsuda, R. (1952). Oyo-Kontyu Tokyo, 8(1): 19-21), one of the dominant pests in major tea production areas in Asia, currently is known to occur in Japan, Vietnam, and China, and severely threatens tea production, quality, and international trade. To elucidate the population genetic structure of this species, 1633 single nucleotide polymorphisms (SNPs) and 18 microsatellite markers (SSRs) were used to genotype samples from 27 sites representing 18 geographical populations distributed throughout the known range of the species in East Asia. Analyses of both SNPs and SSRs showed that M. onukii populations in Yunnan exhibit high-genetic differentiation and structure compared with the other populations. The Kagoshima (JJ) and Shizuoka (JS) populations from Japan were separated from populations from China by SNPs, but clustered with populations from Jinhua (JH), Yingde (YD), Guilin (GL), Fuzhou (FZ), Hainan (HQ), Leshan (CT), Chongqing (CY), and Zunyi (ZY) tea plantations in China and the Vietnamese Vinh Phuc (VN) population based on the SSR data. In contrast, CT, CY, ZY, and Shaanxi (SX) populations clustered together based on SNPs, but were separated by SSRs. Both marker datasets identified significant geographic differentiation among the 18 populations. Various environmental and anthropogenic factors, including geographical barriers to migration, human transport of hosts (Camellia sinesis [L.] O. Kuntze) and adaptation of M. onukii to various local climatic zones possibly account for the rapid spread of this pest in Asia. The results demonstrate that SNPs from high-throughput genotyping data can be used to reveal subtle genetic substructure at broad scales in r-strategist insects.
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Affiliation(s)
- Li Zhang
- Key Laboratory of Plant Protection Resources and Pest Management of the Ministry of Education, Entomological MuseumNorthwest A&F UniversityYanglingShaanxiChina
- Institute of Jiangxi Oil‐Tea Camellia, Jiujiang UniversityJiujiangJiangxiChina
| | - Christopher H. Dietrich
- Illinois Natural History SurveyPrairie Research Institute, University of IllinoisChampaignIllinoisUSA
| | - Ye Xu
- Key Laboratory of Plant Protection Resources and Pest Management of the Ministry of Education, Entomological MuseumNorthwest A&F UniversityYanglingShaanxiChina
- College of Agriculture, Jiangxi Agricultural UniversityNanchangJiangxiChina
| | - Zhaofu Yang
- Key Laboratory of Plant Protection Resources and Pest Management of the Ministry of Education, Entomological MuseumNorthwest A&F UniversityYanglingShaanxiChina
| | - Maohua Chen
- Key Laboratory of Plant Protection Resources and Pest Management of the Ministry of Education, Entomological MuseumNorthwest A&F UniversityYanglingShaanxiChina
| | - Thai H. Pham
- Mientrung Institute for Scientific Research, Vietnam National Museum of Nature, VASTHueVietnam
- Graduate School of Science and Technology, Vietnam Academy of Science and TechnologyHanoiVietnam
| | - Cuong C. V. Le
- Mientrung Institute for Scientific Research, Vietnam National Museum of Nature, VASTHueVietnam
| | - Li Qiao
- College of Agronomy, Xinyang Agricultural and Forestry UniversityXinyangHenanChina
| | - Masaya Matsumura
- Institute for Plant Protection, National Agriculture and Food Research OrganizationTsukubaIbarakiJapan
| | - Daozheng Qin
- Key Laboratory of Plant Protection Resources and Pest Management of the Ministry of Education, Entomological MuseumNorthwest A&F UniversityYanglingShaanxiChina
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Raszick TJ, Dickens CM, Perkin LC, Tessnow AE, Suh CP, Ruiz‐Arce R, Boratynski TN, Falco MR, Johnston JS, Sword GA. Population genomics and phylogeography of the boll weevil, Anthonomus grandis Boheman (Coleoptera: Curculionidae), in the United States, northern Mexico, and Argentina. Evol Appl 2021; 14:1778-1793. [PMID: 34295363 PMCID: PMC8288010 DOI: 10.1111/eva.13238] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2020] [Revised: 03/15/2021] [Accepted: 03/20/2021] [Indexed: 11/26/2022] Open
Abstract
The boll weevil, Anthonomus grandis Boheman (Coleoptera: Curculionidae), is an important pest of commercial cotton across the Americas. In the United States, eradication of this species is complicated by re-infestations of areas where eradication has been previously successful and by the existence of morphologically similar variants that can confound identification efforts. To date, no study has applied a high-throughput sequencing approach to better understand the population genetic structure of the boll weevil. Furthermore, only a single study has investigated genetic relationships between populations in North and South America. We used double digest restriction site-associated DNA sequencing (ddRADseq) to resolve the population genomic structure of the boll weevil in the southern United States, northern Mexico, and Argentina. Additionally, we assembled the first complete mitochondrial genome for this species and generated a preliminary whole genome assembly, both of which were used to improve the identification of informative loci. Downstream analyses revealed two main lineages-one consisting of populations found geographically west of the Sierra Madre Occidental mountain range and the second consisting of populations found to the east-were revealed, and both were sub-structured. Population geographic structure was consistent with the isolation by distance model, indicating that geogrpahic distance is likely a primary mechanism driving divergence in this species. Boll weevil populations from Argentina were found to be more closely related to the eastern lineage, suggesting a recent colonization of South America by the eastern lineage, but additional sampling across Mexico, Central America and South America is needed to further clarify their origin. Finally, we uncovered an instance of population turnover or replacement, highlighting the temporal instability of population structure.
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Affiliation(s)
- Tyler J. Raszick
- Department of EntomologyTexas A&M UniversityCollege StationTXUSA
| | - C. Michael Dickens
- High Performance Research ComputingTexas A&M UniversityCollege StationTXUSA
| | - Lindsey C. Perkin
- Insect Control and Cotton Disease Research UnitUSDA‐ARSCollege StationTXUSA
| | | | - Charles P.‐C. Suh
- Insect Control and Cotton Disease Research UnitUSDA‐ARSCollege StationTXUSA
| | | | | | - Marcelo R. Falco
- Cooperating Association of the School of Agricultural Education #13 GardeningResitenciaArgentina
| | | | - Gregory A. Sword
- Department of EntomologyTexas A&M UniversityCollege StationTXUSA
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Zucchi MI, Cordeiro EMG, Wu X, Lamana LM, Brown PJ, Manjunatha S, Viana JPG, Omoto C, Pinheiro JB, Clough SJ. Population Genomics of the Neotropical Brown Stink Bug, Euschistus heros: The Most Important Emerging Insect Pest to Soybean in Brazil. Front Genet 2019; 10:1035. [PMID: 31749834 PMCID: PMC6844245 DOI: 10.3389/fgene.2019.01035] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/27/2018] [Accepted: 09/27/2019] [Indexed: 11/29/2022] Open
Abstract
Recent changes in soybean management like the adoption of transgenic crops and no-till farming, in addition to the expansion of cultivated areas into new virgin frontiers, are some of the hypotheses that can explain the rise of secondary pests, such as the Neotropical brown stink bug, Euschistus heros, in Brazil. To better access the risk of increased pests like E. heros and to determine probabilities for insecticide resistance spreading, it is necessary first to access the levels of the genetic diversity, how the genetic diversity is distributed, and how natural selection is acting upon the natural variation. Using the genotyping by sequencing (GBS) technique, we generated ~60,000 single-nucleotide polymorphisms (SNPs) distributed across the E. heros genome to answer some of those questions. The SNP data was used to investigate the pattern of genetic structure, hybridization and natural selection of this emerging pest. We found that E. heros populations presented similar levels of genetic diversity with slightly higher values at several central locations in Brazil. Our results also showed strong genetic structure separating northern and southern Brazilian regions (FST = 0.22; p-value = 0.000) with a very distinct hybrid zone at the central region. The analyses also suggest the possibility that GABA channels and odorant receptors might play a role in the process of natural selection. At least one marker was associated with soybean and beans crops, but no association between allele frequency and cotton was found. We discuss the implications of these findings in the management of emerging pests in agriculture, particularly in the context of large areas of monoculture such as soybean and cotton.
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Affiliation(s)
- Maria I Zucchi
- Institute of Biology, University of Campinas, Campinas, Brazil.,Agência Paulista de Tecnologia dos Agronegócios, Pólo Regional Centro-Sul, Piracicaba, Brazil
| | - Erick M G Cordeiro
- Department of Entomology, University of São Paulo-ESALQ/USP, Piracicaba, Brazil
| | - Xing Wu
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, United States
| | - Letícia Marise Lamana
- Department of Fitotecnia e Fitossanidade, Universidade Estadual de Ponta Grossa, Ponta Grossa, Brazil
| | - Patrick J Brown
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, United States
| | - Shilpa Manjunatha
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, United States
| | - João Paulo Gomes Viana
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, United States
| | - Celso Omoto
- Department of Entomology, University of São Paulo-ESALQ/USP, Piracicaba, Brazil
| | - José B Pinheiro
- Department of Genetics, University of São Paulo-ESALQ/USP, Piracicaba, Brazil
| | - Steven J Clough
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, United States.,US Department of Agriculture, Agricultural Research Services, Soybean/Maize Germplasm, Pathology, and Genetics Research Unit, Urbana, IL, United States
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