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De-la-Cruz IM, Batsleer F, Bonte D, Diller C, Hytönen T, Muola A, Osorio S, Posé D, Vandegehuchte ML, Stenberg JA. Evolutionary Ecology of Plant-Arthropod Interactions in Light of the "Omics" Sciences: A Broad Guide. FRONTIERS IN PLANT SCIENCE 2022; 13:808427. [PMID: 35548276 PMCID: PMC9084618 DOI: 10.3389/fpls.2022.808427] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/03/2021] [Accepted: 04/01/2022] [Indexed: 06/15/2023]
Abstract
Aboveground plant-arthropod interactions are typically complex, involving herbivores, predators, pollinators, and various other guilds that can strongly affect plant fitness, directly or indirectly, and individually, synergistically, or antagonistically. However, little is known about how ongoing natural selection by these interacting guilds shapes the evolution of plants, i.e., how they affect the differential survival and reproduction of genotypes due to differences in phenotypes in an environment. Recent technological advances, including next-generation sequencing, metabolomics, and gene-editing technologies along with traditional experimental approaches (e.g., quantitative genetics experiments), have enabled far more comprehensive exploration of the genes and traits involved in complex ecological interactions. Connecting different levels of biological organization (genes to communities) will enhance the understanding of evolutionary interactions in complex communities, but this requires a multidisciplinary approach. Here, we review traditional and modern methods and concepts, then highlight future avenues for studying the evolution of plant-arthropod interactions (e.g., plant-herbivore-pollinator interactions). Besides promoting a fundamental understanding of plant-associated arthropod communities' genetic background and evolution, such knowledge can also help address many current global environmental challenges.
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Affiliation(s)
- Ivan M. De-la-Cruz
- Department of Plant Protection Biology, Swedish University of Agricultural Sciences, Alnarp, Sweden
| | - Femke Batsleer
- Terrestrial Ecology Unit, Department of Biology, Ghent University, Ghent, Belgium
| | - Dries Bonte
- Terrestrial Ecology Unit, Department of Biology, Ghent University, Ghent, Belgium
| | - Carolina Diller
- Department of Plant Protection Biology, Swedish University of Agricultural Sciences, Alnarp, Sweden
| | - Timo Hytönen
- Department of Agricultural Sciences, Viikki Plant Science Centre, University of Helsinki, Helsinki, Finland
- NIAB EMR, West Malling, United Kingdom
| | - Anne Muola
- Department of Plant Protection Biology, Swedish University of Agricultural Sciences, Alnarp, Sweden
- Biodiversity Unit, University of Turku, Finland
| | - Sonia Osorio
- Departamento de Biología Molecular y Bioquímica, Instituto de Hortofruticultura Subtropical y Mediterránea “La Mayora”, Universidad de Málaga-Consejo Superior de Investigaciones Científicas, Campus de Teatinos, Málaga, Spain
| | - David Posé
- Departamento de Biología Molecular y Bioquímica, Instituto de Hortofruticultura Subtropical y Mediterránea “La Mayora”, Universidad de Málaga-Consejo Superior de Investigaciones Científicas, Campus de Teatinos, Málaga, Spain
| | - Martijn L. Vandegehuchte
- Terrestrial Ecology Unit, Department of Biology, Ghent University, Ghent, Belgium
- Department of Biology, Norwegian University of Science and Technology, Trondheim, Norway
| | - Johan A. Stenberg
- Department of Plant Protection Biology, Swedish University of Agricultural Sciences, Alnarp, Sweden
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Purugganan MD, Jackson SA. Advancing crop genomics from lab to field. Nat Genet 2021; 53:595-601. [PMID: 33958781 DOI: 10.1038/s41588-021-00866-3] [Citation(s) in RCA: 21] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2020] [Accepted: 03/22/2021] [Indexed: 01/23/2023]
Abstract
Crop genomics remains a key element in ensuring scientific progress to secure global food security. It has been two decades since the sequence of the first plant genome, that of Arabidopsis thaliana, was released, and soon after that the draft sequencing of the rice genome was completed. Since then, the genomes of more than 100 crops have been sequenced, plant genome research has expanded across multiple fronts and the next few years promise to bring further advances spurred by the advent of new technologies and approaches. We are likely to see continued innovations in crop genome sequencing, genetic mapping and the acquisition of multiple levels of biological data. There will be exciting opportunities to integrate genome-scale information across multiple scales of biological organization, leading to advances in our mechanistic understanding of crop biological processes, which will, in turn, provide greater impetus for translation of laboratory results to the field.
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Affiliation(s)
- Michael D Purugganan
- Center for Genomics and Systems Biology, New York University, New York, NY, USA. .,Center for Genomics and Systems Biology, New York University Abu Dhabi, Abu Dhabi, United Arab Emirates.
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Xia X, Gurr GM, Vasseur L, Zheng D, Zhong H, Qin B, Lin J, Wang Y, Song F, Li Y, Lin H, You M. Metagenomic Sequencing of Diamondback Moth Gut Microbiome Unveils Key Holobiont Adaptations for Herbivory. Front Microbiol 2017; 8:663. [PMID: 28491055 PMCID: PMC5405146 DOI: 10.3389/fmicb.2017.00663] [Citation(s) in RCA: 87] [Impact Index Per Article: 12.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2017] [Accepted: 03/31/2017] [Indexed: 01/18/2023] Open
Abstract
Herbivore specialists adapt to feed on a specific group of host plants by evolving various mechanisms to respond to plant defenses. Insects also possess complex gut microbiotas but their potential role in adaptation is poorly understood. Our previous study of the genome of diamondback moth, Plutella xylostella, revealed an intrinsic capacity to detoxify plant defense compounds, which is an important factor in its success as a pest. Here we expand on that work with a complete taxonomic and functional profile of the P. xylostella gut microbiota obtained by metagenomic sequencing. Gene enrichment in the metagenome, accompanied by functional identification, revealed an important role of specific gut bacteria in the breakdown of plant cell walls, detoxification of plant phenolics, and synthesis of amino acids. Microbes participating in these pathways mainly belonged to three highly abundant bacteria: Enterobacter cloacae, Enterobacter asburiae, and Carnobacterium maltaromaticum. Results show that while the gut microbial community may be complex, a small number of functionally active species can be disproportionally important. The presence of specific enzymes in the microbiota community, such as supporting amino acid synthesis, digestion and detoxification functions, demonstrates the beneficial interactions between P. xylostella and its gut microbiota. These interactions can be potential targets for manipulation to provide novel pest management approaches.
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Affiliation(s)
- Xiaofeng Xia
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry UniversityFuzhou, China
- Institute of Applied Ecology, Fujian Agriculture and Forestry UniversityFuzhou, China
- Key Laboratory of Integrated Pest Management for Fujian-Taiwan Crops, Ministry of AgricultureFuzhou, China
- Fujian-Taiwan Joint Innovation Centre for Ecological Control of Crop Pests, Fujian Agriculture and Forestry UniversityFuzhou, China
| | - Geoff M. Gurr
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry UniversityFuzhou, China
- Institute of Applied Ecology, Fujian Agriculture and Forestry UniversityFuzhou, China
- Key Laboratory of Integrated Pest Management for Fujian-Taiwan Crops, Ministry of AgricultureFuzhou, China
- Graham Centre, Charles Sturt UniversityOrange, NSW, Australia
| | - Liette Vasseur
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry UniversityFuzhou, China
- Institute of Applied Ecology, Fujian Agriculture and Forestry UniversityFuzhou, China
- Key Laboratory of Integrated Pest Management for Fujian-Taiwan Crops, Ministry of AgricultureFuzhou, China
- Department of Biological Sciences, Brock UniversitySt. Catharines, ON, Canada
| | - Dandan Zheng
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry UniversityFuzhou, China
- Institute of Applied Ecology, Fujian Agriculture and Forestry UniversityFuzhou, China
- Key Laboratory of Integrated Pest Management for Fujian-Taiwan Crops, Ministry of AgricultureFuzhou, China
- Fujian-Taiwan Joint Innovation Centre for Ecological Control of Crop Pests, Fujian Agriculture and Forestry UniversityFuzhou, China
| | | | | | - Junhan Lin
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry UniversityFuzhou, China
- Institute of Applied Ecology, Fujian Agriculture and Forestry UniversityFuzhou, China
- Key Laboratory of Integrated Pest Management for Fujian-Taiwan Crops, Ministry of AgricultureFuzhou, China
- Fujian-Taiwan Joint Innovation Centre for Ecological Control of Crop Pests, Fujian Agriculture and Forestry UniversityFuzhou, China
| | - Yue Wang
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry UniversityFuzhou, China
- Institute of Applied Ecology, Fujian Agriculture and Forestry UniversityFuzhou, China
- Key Laboratory of Integrated Pest Management for Fujian-Taiwan Crops, Ministry of AgricultureFuzhou, China
- Fujian-Taiwan Joint Innovation Centre for Ecological Control of Crop Pests, Fujian Agriculture and Forestry UniversityFuzhou, China
| | - FengQin Song
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry UniversityFuzhou, China
- Institute of Applied Ecology, Fujian Agriculture and Forestry UniversityFuzhou, China
- Key Laboratory of Integrated Pest Management for Fujian-Taiwan Crops, Ministry of AgricultureFuzhou, China
- Fujian-Taiwan Joint Innovation Centre for Ecological Control of Crop Pests, Fujian Agriculture and Forestry UniversityFuzhou, China
| | - Yong Li
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry UniversityFuzhou, China
- Institute of Applied Ecology, Fujian Agriculture and Forestry UniversityFuzhou, China
- Key Laboratory of Integrated Pest Management for Fujian-Taiwan Crops, Ministry of AgricultureFuzhou, China
- Fujian-Taiwan Joint Innovation Centre for Ecological Control of Crop Pests, Fujian Agriculture and Forestry UniversityFuzhou, China
| | - Hailan Lin
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry UniversityFuzhou, China
- Institute of Applied Ecology, Fujian Agriculture and Forestry UniversityFuzhou, China
- Key Laboratory of Integrated Pest Management for Fujian-Taiwan Crops, Ministry of AgricultureFuzhou, China
- Fujian-Taiwan Joint Innovation Centre for Ecological Control of Crop Pests, Fujian Agriculture and Forestry UniversityFuzhou, China
| | - Minsheng You
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry UniversityFuzhou, China
- Institute of Applied Ecology, Fujian Agriculture and Forestry UniversityFuzhou, China
- Key Laboratory of Integrated Pest Management for Fujian-Taiwan Crops, Ministry of AgricultureFuzhou, China
- Fujian-Taiwan Joint Innovation Centre for Ecological Control of Crop Pests, Fujian Agriculture and Forestry UniversityFuzhou, China
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Reisenman CE, Riffell JA. The neural bases of host plant selection in a Neuroecology framework. Front Physiol 2015; 6:229. [PMID: 26321961 PMCID: PMC4532911 DOI: 10.3389/fphys.2015.00229] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2015] [Accepted: 07/28/2015] [Indexed: 11/13/2022] Open
Abstract
Understanding how animals make use of environmental information to guide behavior is a fundamental problem in the field of neuroscience. Similarly, the field of ecology seeks to understand the role of behavior in shaping interactions between organisms at various levels of organization, including population-, community- and even ecosystem-level scales. Together, the newly emerged field of “Neuroecology” seeks to unravel this fundamental question by studying both the function of neurons at many levels of the sensory pathway and the interactions between organisms and their natural environment. The interactions between herbivorous insects and their host plants are ideal examples of Neuroecology given the strong ecological and evolutionary forces and the underlying physiological and behavioral mechanisms that shaped these interactions. In this review we focus on an exemplary herbivorous insect within the Lepidoptera, the giant sphinx moth Manduca sexta, as much is known about the natural behaviors related to host plant selection and the involved neurons at several level of the sensory pathway. We also discuss how herbivore-induced plant odorants and secondary metabolites in floral nectar in turn can affect moth behavior, and the underlying neural mechanisms.
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Affiliation(s)
- Carolina E Reisenman
- Department of Molecular and Cell Biology, University of California Berkeley, CA, USA
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Simon JC, d'Alencon E, Guy E, Jacquin-Joly E, Jaquiery J, Nouhaud P, Peccoud J, Sugio A, Streiff R. Genomics of adaptation to host-plants in herbivorous insects. Brief Funct Genomics 2015; 14:413-23. [DOI: 10.1093/bfgp/elv015] [Citation(s) in RCA: 96] [Impact Index Per Article: 10.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Evidence for functional convergence in genes upregulated by herbivores ingesting plant secondary compounds. BMC Ecol 2014; 14:23. [PMID: 25123454 PMCID: PMC4153740 DOI: 10.1186/1472-6785-14-23] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2014] [Accepted: 07/03/2014] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Nearly 40 years ago, Freeland and Janzen predicted that liver biotransformation enzymes dictated diet selection by herbivores. Despite decades of research on model species and humans, little is known about the biotransformation mechanisms used by mammalian herbivores to metabolize plant secondary compounds (PSCs). We investigated the independent evolution of PSC biotransformation mechanisms by capitalizing on a dramatic diet change event-the dietary inclusion of creosote bush (Larrea tridentata)-that occurred in the recent evolutionary history of two species of woodrats (Neotoma lepida and N. bryanti). RESULTS By comparing gene expression profiles of two populations of woodrats with evolutionary experience to creosote and one population naïve to creosote, we identified genes either induced by a diet containing creosote PSCs or constitutively higher in populations with evolutionary experience of creosote. Although only one detoxification gene (an aldo-keto reductase) was induced by both experienced populations, these populations converged upon functionally equivalent strategies to biotransform the PSCs of creosote bush by constitutively expressing aldehyde and alcohol dehydrogenases, Cytochromes P450s, methyltransferases, glutathione S-transferases and sulfotransferases. The response of the naïve woodrat population to creosote bush was indicative of extreme physiological stress. CONCLUSIONS The hepatic detoxification system of mammals is notoriously complex, with hundreds of known biotransformation enzymes. The comparison herein of woodrat taxa that differ in evolutionary and ecological experience with toxins in creosote bush reveals convergence in the overall strategies used by independent species after a historical shift in diet. In addition, remarkably few genes seemed to be important in this dietary shift. The research lays the requisite groundwork for future studies of specific biotransformation pathways used by woodrats to metabolize the toxins in creosote and the evolution of diet switching in woodrats. On a larger level, this work advances our understanding of the mechanisms used by mammalian herbivores to process toxic diets and illustrates the importance of the selective relationship of PSCs in shaping herbivore diversity.
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You M, Yue Z, He W, Yang X, Yang G, Xie M, Zhan D, Baxter SW, Vasseur L, Gurr GM, Douglas CJ, Bai J, Wang P, Cui K, Huang S, Li X, Zhou Q, Wu Z, Chen Q, Liu C, Wang B, Li X, Xu X, Lu C, Hu M, Davey JW, Smith SM, Chen M, Xia X, Tang W, Ke F, Zheng D, Hu Y, Song F, You Y, Ma X, Peng L, Zheng Y, Liang Y, Chen Y, Yu L, Zhang Y, Liu Y, Li G, Fang L, Li J, Zhou X, Luo Y, Gou C, Wang J, Wang J, Yang H, Wang J. A heterozygous moth genome provides insights into herbivory and detoxification. Nat Genet 2013; 45:220-5. [PMID: 23313953 DOI: 10.1038/ng.2524] [Citation(s) in RCA: 378] [Impact Index Per Article: 34.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2012] [Accepted: 12/12/2012] [Indexed: 11/09/2022]
Abstract
How an insect evolves to become a successful herbivore is of profound biological and practical importance. Herbivores are often adapted to feed on a specific group of evolutionarily and biochemically related host plants, but the genetic and molecular bases for adaptation to plant defense compounds remain poorly understood. We report the first whole-genome sequence of a basal lepidopteran species, Plutella xylostella, which contains 18,071 protein-coding and 1,412 unique genes with an expansion of gene families associated with perception and the detoxification of plant defense compounds. A recent expansion of retrotransposons near detoxification-related genes and a wider system used in the metabolism of plant defense compounds are shown to also be involved in the development of insecticide resistance. This work shows the genetic and molecular bases for the evolutionary success of this worldwide herbivore and offers wider insights into insect adaptation to plant feeding, as well as opening avenues for more sustainable pest management.
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Affiliation(s)
- Minsheng You
- Institute of Applied Ecology, Fujian Agriculture and Forestry University, Fuzhou, China.
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Louis J, Singh V, Shah J. Arabidopsis thaliana-Aphid Interaction. THE ARABIDOPSIS BOOK 2012; 10:e0159. [PMID: 22666177 PMCID: PMC3365623 DOI: 10.1199/tab.0159] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/08/2023]
Abstract
Aphids are important pests of plants that use their stylets to tap into the sieve elements to consume phloem sap. Besides the removal of photosynthates, aphid infestation also alters source-sink patterns. Most aphids also vector viral diseases. In this chapter, we will summarize on recent significant findings in plant-aphid interaction, and how studies involving Arabidopsis thaliana and Myzus persicae (Sülzer), more commonly known as the green peach aphid (GPA), are beginning to provide important insights into the molecular basis of plant defense and susceptibility to aphids. The recent demonstration that expression of dsRNA in Arabidopsis can be used to silence expression of genes in GPA has further expanded the utility of Arabidopsis for evaluating the contribution of the aphid genome-encoded proteins to this interaction.
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Affiliation(s)
- Joe Louis
- Department of Biological Sciences, University of North Texas, Denton, TX 76203, USA
- Current address: Department of Entomology and Center for Chemical Ecology, The Pennsylvania State University, University Park, PA 16802, USA
| | - Vijay Singh
- Department of Biological Sciences, University of North Texas, Denton, TX 76203, USA
| | - Jyoti Shah
- Department of Biological Sciences, University of North Texas, Denton, TX 76203, USA
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Forister ML, Dyer LA, Singer MS, Stireman III JO, Lill JT. Revisiting the evolution of ecological specialization, with emphasis on insect–plant interactions. Ecology 2012; 93:981-91. [DOI: 10.1890/11-0650.1] [Citation(s) in RCA: 217] [Impact Index Per Article: 18.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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Kloth KJ, Thoen MPM, Bouwmeester HJ, Jongsma MA, Dicke M. Association mapping of plant resistance to insects. TRENDS IN PLANT SCIENCE 2012; 17:311-9. [PMID: 22322003 DOI: 10.1016/j.tplants.2012.01.002] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/31/2011] [Revised: 12/22/2011] [Accepted: 01/04/2012] [Indexed: 05/03/2023]
Abstract
Association mapping is rapidly becoming an important method to explore the genetic architecture of complex traits in plants and offers unique opportunities for studying resistance to insect herbivores. Recent studies indicate that there is a trade-off between resistance against generalist and specialist insects. Most studies, however, use a targeted approach that will easily miss important components of insect resistance. Genome-wide association mapping provides a comprehensive approach to explore the whole array of plant defense mechanisms in the context of the generalist-specialist paradigm. As association mapping involves the screening of large numbers of plant lines, specific and accurate high-throughput phenotyping (HTP) methods are needed. Here, we discuss the prospects of association mapping for insect resistance and HTP requirements.
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Affiliation(s)
- Karen J Kloth
- Laboratory of Entomology, Wageningen University, P.O. Box 8031, 6700 EH Wageningen, The Netherlands
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Whiteman NK, Groen SC, Chevasco D, Bear A, Beckwith N, Gregory TR, Denoux C, Mammarella N, Ausubel FM, Pierce NE. Mining the plant-herbivore interface with a leafmining Drosophila of Arabidopsis. Mol Ecol 2011; 20:995-1014. [PMID: 21073583 PMCID: PMC3062943 DOI: 10.1111/j.1365-294x.2010.04901.x] [Citation(s) in RCA: 57] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
Experimental infections of Arabidopsis thaliana (Arabidopsis) with genomically characterized plant pathogens such as Pseudomonas syringae have facilitated the dissection of canonical eukaryotic defence pathways and parasite virulence factors. Plants are also attacked by herbivorous insects, and the development of an ecologically relevant genetic model herbivore that feeds on Arabidopsis will enable the parallel dissection of host defence and reciprocal resistance pathways such as those involved in xenobiotic metabolism. An ideal candidate is Scaptomyza flava, a drosophilid fly whose leafmining larvae are true herbivores that can be found in nature feeding on Arabidopsis and other crucifers. Here, we describe the life cycle of S. flava on Arabidopsis and use multiple approaches to characterize the response of Arabidopsis to S. flava attack. Oviposition choice tests and growth performance assays on different Arabidopsis ecotypes, defence-related mutants, and hormone and chitin-treated plants revealed significant differences in host preference and variation in larval performance across Arabidopsis accessions. The jasmonate and glucosinolate pathways in Arabidopsis are important in mediating quantitative resistance against S. flava, and priming with jasmonate or chitin resulted in increased resistance. Expression of xenobiotic detoxification genes was reduced in S. flava larvae reared on Arabidopsis jasmonate signalling mutants and increased in plants pretreated with chitin. These results and future research directions are discussed in the context of developing a genetic model system to analyse insect-plant interactions.
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Affiliation(s)
- Noah K Whiteman
- Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA 02478, USA.
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