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Silva CS, Cordeiro EM, de Paiva JB, Dourado PM, Carvalho RA, Head G, Martinelli S, Correa AS. Population expansion and genomic adaptation to agricultural environments of the soybean looper, Chrysodeixis includens. Evol Appl 2020; 13:2071-2085. [PMID: 32908605 PMCID: PMC7463353 DOI: 10.1111/eva.12966] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/27/2019] [Revised: 03/01/2020] [Accepted: 03/20/2020] [Indexed: 12/21/2022] Open
Abstract
Evolutionary studies of insect pests improve our ability to anticipate problems in agricultural ecosystems, such as pest outbreaks, control failures, or expansions of the host range. Here, we investigated the mechanisms underlying the evolutionary processes behind the recent census size expansion and local adaptation of Chrysodeixis includens. First, we sequenced mitochondrial markers to conduct a phylogeographic investigation of C. includens historical processes. Then, we combined a de novo genotyping-by-sequencing approach with a study of agricultural landscapes to uncover recent processes of adaptation. Primarily, we found low genetic diversity across all markers and clear indications of a recent demographic expansion. We also found a lack of significant isolation by distance (IBD), and weak or absent genetic structure considering geographic locations. However, we did find initial signs of population differentiation that were associated with host plant types (i.e., soybean and cotton). Agricultural landscape attributes, including soybean crops, were significantly associated with putative markers under positive selection. Moreover, positive selection associated with host differentiation was putatively linked to digestive enzymes. This study showed how landscape composition and host plants can affect the evolutionary process of agricultural pest insects such as C. includens.
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Affiliation(s)
- Cleane S. Silva
- Department of Entomology and AcarologyLuiz de Queiroz College of AgricultureUniversity of Sao PauloPiracicabaBrazil
| | - Erick M.G. Cordeiro
- Department of Entomology and AcarologyLuiz de Queiroz College of AgricultureUniversity of Sao PauloPiracicabaBrazil
| | - Julia B. de Paiva
- Department of Entomology and AcarologyLuiz de Queiroz College of AgricultureUniversity of Sao PauloPiracicabaBrazil
| | | | | | | | | | - Alberto S. Correa
- Department of Entomology and AcarologyLuiz de Queiroz College of AgricultureUniversity of Sao PauloPiracicabaBrazil
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Lomate PR, Dewangan V, Mahajan NS, Kumar Y, Kulkarni A, Wang L, Saxena S, Gupta VS, Giri AP. Integrated Transcriptomic and Proteomic Analyses Suggest the Participation of Endogenous Protease Inhibitors in the Regulation of Protease Gene Expression in Helicoverpa armigera. Mol Cell Proteomics 2018; 17:1324-1336. [PMID: 29661852 DOI: 10.1074/mcp.ra117.000533] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2017] [Revised: 03/16/2018] [Indexed: 11/06/2022] Open
Abstract
Insects adapt to plant protease inhibitors (PIs) present in their diet by differentially regulating multiple digestive proteases. However, mechanisms regulating protease gene expression in insects are largely enigmatic. Ingestion of multi-domain recombinant Capsicum annuum protease inhibitor-7 (CanPI-7) arrests growth and development of Helicoverpa armigera (Lepidoptera: Noctuidae). Using de novo RNA sequencing and proteomic analysis, we examined the response of H. armigera larvae fed on recombinant CanPI-7 at different time intervals. Here, we present evidence supporting a dynamic transition in H. armigera protease expression on CanPI-7 feeding with general down-regulation of protease genes at early time points (0.5 to 6 h) and significant up-regulation of specific trypsin, chymotrypsin and aminopeptidase genes at later time points (12 to 48 h). Further, coexpression of H. armigera endogenous PIs with several digestive protease genes were apparent. In addition to the differential expression of endogenous H. armigera PIs, we also observed a distinct novel isoform of endogenous PI in CanPI-7 fed H. armigera larvae. Based on present and earlier studies, we propose potential mechanism of protease regulation in H. armigera and subsequent adaptation strategy to cope with anti-nutritional components of plants.
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Affiliation(s)
- Purushottam R Lomate
- From the ‡Plant Molecular Biology Unit, Division of Biochemical Sciences, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune 411 008, MS, India
| | - Veena Dewangan
- From the ‡Plant Molecular Biology Unit, Division of Biochemical Sciences, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune 411 008, MS, India
| | - Neha S Mahajan
- From the ‡Plant Molecular Biology Unit, Division of Biochemical Sciences, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune 411 008, MS, India
| | - Yashwant Kumar
- From the ‡Plant Molecular Biology Unit, Division of Biochemical Sciences, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune 411 008, MS, India
| | - Abhijeet Kulkarni
- §Bioinformatics Centre, Savitribai Phule Pune University, Pune 411007, MS, India
| | - Li Wang
- ¶Department of Ecology, Evolution and Organismal Biology, Iowa State University, Ames 50011, IA
| | - Smita Saxena
- §Bioinformatics Centre, Savitribai Phule Pune University, Pune 411007, MS, India
| | - Vidya S Gupta
- From the ‡Plant Molecular Biology Unit, Division of Biochemical Sciences, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune 411 008, MS, India
| | - Ashok P Giri
- From the ‡Plant Molecular Biology Unit, Division of Biochemical Sciences, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune 411 008, MS, India;
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