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North HL, Fu Z, Metz R, Stull MA, Johnson CD, Shirley X, Crumley K, Reisig D, Kerns DL, Gilligan T, Walsh T, Jiggins CD, Sword GA. Rapid Adaptation and Interspecific Introgression in the North American Crop Pest Helicoverpa zea. Mol Biol Evol 2024; 41:msae129. [PMID: 38941083 PMCID: PMC11259193 DOI: 10.1093/molbev/msae129] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2023] [Revised: 06/12/2024] [Accepted: 06/14/2024] [Indexed: 06/29/2024] Open
Abstract
Insect crop pests threaten global food security. This threat is amplified through the spread of nonnative species and through adaptation of native pests to control measures. Adaptations such as pesticide resistance can result from selection on variation within a population, or through gene flow from another population. We investigate these processes in an economically important noctuid crop pest, Helicoverpa zea, which has evolved resistance to a wide range of pesticides. Its sister species Helicoverpa armigera, first detected as an invasive species in Brazil in 2013, introduced the pyrethroid-resistance gene CYP337B3 to South American H. zea via adaptive introgression. To understand whether this could contribute to pesticide resistance in North America, we sequenced 237 H. zea genomes across 10 sample sites. We report H. armigera introgression into the North American H. zea population. Two individuals sampled in Texas in 2019 carry H. armigera haplotypes in a 4 Mbp region containing CYP337B3. Next, we identify signatures of selection in the panmictic population of nonadmixed H. zea, identifying a selective sweep at a second cytochrome P450 gene: CYP333B3. We estimate that its derived allele conferred a ∼5% fitness advantage and show that this estimate explains independently observed rare nonsynonymous CYP333B3 mutations approaching fixation over a ∼20-year period. We also detect putative signatures of selection at a kinesin gene associated with Bt resistance. Overall, we document two mechanisms of rapid adaptation: the introduction of fitness-enhancing alleles through interspecific introgression, and selection on intraspecific variation.
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Affiliation(s)
- Henry L North
- Department of Zoology, University of Cambridge, Cambridge CB2 3EJ, UK
| | - Zhen Fu
- Department of Entomology, Texas A&M University, College Station, TX 77843, USA
- Bioinformatics and Biostatistics Core, Van Andel Institute, Grand Rapids, MI 49503, USA
| | - Richard Metz
- AgriLife Genomics and Bioinformatics Service, Texas A&M University, College Station, TX 77843, USA
| | - Matt A Stull
- AgriLife Genomics and Bioinformatics Service, Texas A&M University, College Station, TX 77843, USA
| | - Charles D Johnson
- AgriLife Genomics and Bioinformatics Service, Texas A&M University, College Station, TX 77843, USA
| | - Xanthe Shirley
- Animal and Plant Health Inspection Service, United States Department of Agriculture, College Station, TX, USA
| | - Kate Crumley
- Agrilife Extension, Texas A&M University, Wharton, TX, USA
| | - Dominic Reisig
- Department of Entomology and Plant Pathology, North Carolina State University, Plymouth, NC, 27962, USA
| | - David L Kerns
- Department of Entomology, Texas A&M University, College Station, TX 77843, USA
| | - Todd Gilligan
- Animal and Plant Health Inspection Service, United States Department of Agriculture, Fort Collins, CO, USA
| | - Tom Walsh
- Black Mountain Laboratories, Commonwealth Scientific and Industrial Research Organization, Canberra, Australia
| | - Chris D Jiggins
- Department of Zoology, University of Cambridge, Cambridge CB2 3EJ, UK
| | - Gregory A Sword
- Department of Entomology, Texas A&M University, College Station, TX 77843, USA
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3
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Roy DB, Alison J, August TA, Bélisle M, Bjerge K, Bowden JJ, Bunsen MJ, Cunha F, Geissmann Q, Goldmann K, Gomez-Segura A, Jain A, Huijbers C, Larrivée M, Lawson JL, Mann HM, Mazerolle MJ, McFarland KP, Pasi L, Peters S, Pinoy N, Rolnick D, Skinner GL, Strickson OT, Svenning A, Teagle S, Høye TT. Towards a standardized framework for AI-assisted, image-based monitoring of nocturnal insects. Philos Trans R Soc Lond B Biol Sci 2024; 379:20230108. [PMID: 38705190 PMCID: PMC11070254 DOI: 10.1098/rstb.2023.0108] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2023] [Accepted: 01/17/2024] [Indexed: 05/07/2024] Open
Abstract
Automated sensors have potential to standardize and expand the monitoring of insects across the globe. As one of the most scalable and fastest developing sensor technologies, we describe a framework for automated, image-based monitoring of nocturnal insects-from sensor development and field deployment to workflows for data processing and publishing. Sensors comprise a light to attract insects, a camera for collecting images and a computer for scheduling, data storage and processing. Metadata is important to describe sampling schedules that balance the capture of relevant ecological information against power and data storage limitations. Large data volumes of images from automated systems necessitate scalable and effective data processing. We describe computer vision approaches for the detection, tracking and classification of insects, including models built from existing aggregations of labelled insect images. Data from automated camera systems necessitate approaches that account for inherent biases. We advocate models that explicitly correct for bias in species occurrence or abundance estimates resulting from the imperfect detection of species or individuals present during sampling occasions. We propose ten priorities towards a step-change in automated monitoring of nocturnal insects, a vital task in the face of rapid biodiversity loss from global threats. This article is part of the theme issue 'Towards a toolkit for global insect biodiversity monitoring'.
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Affiliation(s)
- D. B. Roy
- UK Centre for Ecology & Hydrology, Maclean Building, Benson Lane, Wallingford OX10 8BB, UK
- Centre for Ecology and Conservation, University of Exeter, Penryn TR10 9EZ, UK
| | - J. Alison
- Department of Ecoscience and Arctic Research Centre, Aarhus University, C.F Møllers Alle 3, Aarhus, Denmark
| | - T. A. August
- UK Centre for Ecology & Hydrology, Maclean Building, Benson Lane, Wallingford OX10 8BB, UK
| | - M. Bélisle
- Centre d'étude de la forêt (CEF) et Département de biologie, Université de Sherbrooke, 2500 Boulevard de l'Université, Sherbrooke, Québec, Canada J1K 2R1
| | - K. Bjerge
- Department of Electrical and Computer Engineering, Aarhus University, C.F Møllers Alle 3, Aarhus, Denmark
| | - J. J. Bowden
- Natural Resources Canada, Canadian Forest Service – Atlantic Forestry Centre, 26 University Drive, PO Box 960, Corner Brook, Newfoundland, Canada A2H 6J3
| | - M. J. Bunsen
- Mila – Québec AI Institute, Montréal, Québec, Canada H3A 0E9
| | - F. Cunha
- Mila – Québec AI Institute, Montréal, Québec, Canada H3A 0E9
- Federal University of Amazonas, Manaus, 69080–900, Brazil
| | - Q. Geissmann
- Center For Quantitative Genetics and Genomics, Aarhus University, C.F Møllers Alle 3, Aarhus, Denmark
| | - K. Goldmann
- The Alan Turing Institute, 96 Euston Road, London NW1 2DB, UK
| | - A. Gomez-Segura
- UK Centre for Ecology & Hydrology, Maclean Building, Benson Lane, Wallingford OX10 8BB, UK
| | - A. Jain
- Mila – Québec AI Institute, Montréal, Québec, Canada H3A 0E9
| | - C. Huijbers
- Naturalis Biodiversity Centre, Darwinweg 2, 2333 CR Leiden, The Netherlands
| | - M. Larrivée
- Insectarium de Montreal, 4581 Sherbrooke Rue E, Montreal, Québec, Canada H1X 2B2
| | - J. L. Lawson
- UK Centre for Ecology & Hydrology, Maclean Building, Benson Lane, Wallingford OX10 8BB, UK
| | - H. M. Mann
- Department of Ecoscience and Arctic Research Centre, Aarhus University, C.F Møllers Alle 3, Aarhus, Denmark
| | - M. J. Mazerolle
- Centre d'étude de la forêt, Département des sciences du bois et de la forêt, Faculté de foresterie, de géographie et de géomatique, Université Laval, Québec, Canada G1V 0A6
| | - K. P. McFarland
- Vermont Centre for Ecostudies, 20 Palmer Court, White River Junction, VT 05001, USA
| | - L. Pasi
- Mila – Québec AI Institute, Montréal, Québec, Canada H3A 0E9
- Ecole Polytechnique, Federale de Lausanne, Station 21, 1015 Lausanne, Switzerland
| | - S. Peters
- Faunabit, Strijkviertel 26 achter, 3454 Pm De Meern, The Netherlands
| | - N. Pinoy
- Department of Ecoscience and Arctic Research Centre, Aarhus University, C.F Møllers Alle 3, Aarhus, Denmark
| | - D. Rolnick
- Mila – Québec AI Institute, Montréal, Québec, Canada H3A 0E9
- School of Computer Science, McGill University, Montreal, Canada H3A 0E99
| | - G. L. Skinner
- UK Centre for Ecology & Hydrology, Maclean Building, Benson Lane, Wallingford OX10 8BB, UK
| | - O. T. Strickson
- The Alan Turing Institute, 96 Euston Road, London NW1 2DB, UK
| | - A. Svenning
- Department of Ecoscience and Arctic Research Centre, Aarhus University, C.F Møllers Alle 3, Aarhus, Denmark
| | - S. Teagle
- UK Centre for Ecology & Hydrology, Maclean Building, Benson Lane, Wallingford OX10 8BB, UK
| | - T. T. Høye
- Department of Ecoscience and Arctic Research Centre, Aarhus University, C.F Møllers Alle 3, Aarhus, Denmark
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4
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Deans AR, Porturas L. Diversity and complexity of arthropod references in haiku. PLoS One 2024; 19:e0298865. [PMID: 38568873 PMCID: PMC10990216 DOI: 10.1371/journal.pone.0298865] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2023] [Accepted: 02/01/2024] [Indexed: 04/05/2024] Open
Abstract
Haiku are short poems, each composed of about 10 words, that typically describe moments in nature. People have written haiku since at least the 17th century, and the medium continues to be popular with poets, amateurs, educators, and students. Collectively, these poems represent an opportunity to understand which aspects of nature-e.g., which taxa and biological traits-resonate with humans and whether there are temporal trends in their representation or the emotions associated with these moments. We tested this potential using a mix of linguistic and biological methods, in analyses of nearly 4,000 haiku that reference arthropods. We documented the taxa and the life history traits represented in these poems and how they changed over time. We also analyzed the poems for emotion and tone. Our results reveal a mix of predictable trends and compelling surprises, each of which stand to potentially inform engagement strategies. At least 99 families of arthropods, in 28 orders, are represented in these haiku. The eight most commonly referenced taxa, from highest to lowest number of references, include: Lepidoptera, Hymenoptera, Diptera, Coleoptera, Araneae, Orthoptera, Hemiptera, and Odonata. Several common, conspicuous orders were never referenced, including Trichoptera, Plecoptera, and Megaloptera. The most commonly referenced traits relate to ecology (especially habitat, phenology, time of day), behavior (especially sound production), phenotype (especially color), and locomotion (especially flight). The least common traits in haiku relate to arthropod reproduction and physiology. Our analyses revealed few obvious temporal trends in the representations of taxa, biological traits, or emotion and tone. The broader implications of these results and possible future directions are discussed.
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Affiliation(s)
- Andrew R. Deans
- Frost Entomological Museum, The Pennsylvania State University, University Park, Pennsylvania, United States of America
| | - Laura Porturas
- Frost Entomological Museum, The Pennsylvania State University, University Park, Pennsylvania, United States of America
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Slade EM, Ong XR. The future of tropical insect diversity: strategies to fill data and knowledge gaps. CURRENT OPINION IN INSECT SCIENCE 2023; 58:101063. [PMID: 37247774 DOI: 10.1016/j.cois.2023.101063] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/24/2023] [Revised: 04/17/2023] [Accepted: 05/23/2023] [Indexed: 05/31/2023]
Abstract
The decline of insect diversity is a much-discussed, yet understudied phenomenon, particularly in the tropics, where the majority of insect abundance, diversity and biomass is found. Integrated approaches involving traditional taxonomic methods, new molecular approaches, and novel monitoring and identification tools and applications are needed to address related and challenging questions regarding how many species of tropical insects exist, their distributions and natural history, the relative impacts of global change drivers on insect diversity across complex tropical landscapes, and the effects of insect declines on ecosystem functions and services. The main barriers to addressing these challenges are a lack of capacity and funding for research on insects in tropical countries and a lack of recognition of their importance for ecosystem functioning and human wellbeing. Insects must be brought into policy agendas, local capacity and funding through cross-boundary collaborations and equitable scientific practices increased, and their importance emphasized.
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Affiliation(s)
- Eleanor M Slade
- Tropical Ecology & Entomology Lab, Asian School of the Environment, Nanyang Technological University, 50 Nanyang Avenue, 639798, Singapore.
| | - Xin Rui Ong
- Tropical Ecology & Entomology Lab, Asian School of the Environment, Nanyang Technological University, 50 Nanyang Avenue, 639798, Singapore
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