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Clark AC, Edison R, Esvelt K, Kamau S, Dutoit L, Champer J, Champer SE, Messer PW, Alexander A, Gemmell NJ. A framework for identifying fertility gene targets for mammalian pest control. Mol Ecol Resour 2024; 24:e13901. [PMID: 38009398 DOI: 10.1111/1755-0998.13901] [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: 06/23/2023] [Revised: 10/16/2023] [Accepted: 11/06/2023] [Indexed: 11/28/2023]
Abstract
Fertility-targeted gene drives have been proposed as an ethical genetic approach for managing wild populations of vertebrate pests for public health and conservation benefit. This manuscript introduces a framework to identify and evaluate target gene suitability based on biological gene function, gene expression and results from mouse knockout models. This framework identified 16 genes essential for male fertility and 12 genes important for female fertility that may be feasible targets for mammalian gene drives and other non-drive genetic pest control technology. Further, a comparative genomics analysis demonstrates the conservation of the identified genes across several globally significant invasive mammals. In addition to providing important considerations for identifying candidate genes, our framework and the genes identified in this study may have utility in developing additional pest control tools such as wildlife contraceptives.
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Affiliation(s)
- Anna C Clark
- Department of Anatomy, School of Biomedical Sciences, University of Otago, Dunedin, New Zealand
- Department of Computational Biology, Cornell University, Ithaca, New York, USA
| | - Rey Edison
- Media Laboratory, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA
| | - Kevin Esvelt
- Media Laboratory, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA
| | - Sebastian Kamau
- Media Laboratory, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA
| | - Ludovic Dutoit
- Department of Zoology, University of Otago, Dunedin, New Zealand
| | - Jackson Champer
- Center for Bioinformatics, School of Life Sciences, Peking-Tsinghua Center for Life Sciences, Peking University, Beijing, China
| | - Samuel E Champer
- Department of Computational Biology, Cornell University, Ithaca, New York, USA
| | - Philipp W Messer
- Department of Computational Biology, Cornell University, Ithaca, New York, USA
| | - Alana Alexander
- Department of Anatomy, School of Biomedical Sciences, University of Otago, Dunedin, New Zealand
| | - Neil J Gemmell
- Department of Anatomy, School of Biomedical Sciences, University of Otago, Dunedin, New Zealand
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Clark AC, Alexander A, Edison R, Esvelt K, Kamau S, Dutoit L, Champer J, Champer SE, Messer PW, Gemmell NJ. A framework for identifying fertility gene targets for mammalian pest control. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.05.30.542751. [PMID: 37398071 PMCID: PMC10312551 DOI: 10.1101/2023.05.30.542751] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/04/2023]
Abstract
Fertility-targeted gene drives have been proposed as an ethical genetic approach for managing wild populations of vertebrate pests for public health and conservation benefit.This manuscript introduces a framework to identify and evaluate target gene suitability based on biological gene function, gene expression, and results from mouse knockout models.This framework identified 16 genes essential for male fertility and 12 genes important for female fertility that may be feasible targets for mammalian gene drives and other non-drive genetic pest control technology. Further, a comparative genomics analysis demonstrates the conservation of the identified genes across several globally significant invasive mammals.In addition to providing important considerations for identifying candidate genes, our framework and the genes identified in this study may have utility in developing additional pest control tools such as wildlife contraceptives.
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Affiliation(s)
- Anna C Clark
- Department of Anatomy, School of Biomedical Sciences, University of Otago, 270 Great King Street, Central Dunedin, Dunedin 9016, New Zealand
- Department of Computational Biology, Cornell University, 102 Tower Rd, Ithaca, NY 14853, United States
| | - Alana Alexander
- Department of Anatomy, School of Biomedical Sciences, University of Otago, 270 Great King Street, Central Dunedin, Dunedin 9016, New Zealand
| | - Rey Edison
- Media Laboratory, Massachusetts Institute of Technology, 75 Amherst St, Cambridge, United States
| | - Kevin Esvelt
- Media Laboratory, Massachusetts Institute of Technology, 75 Amherst St, Cambridge, United States
| | - Sebastian Kamau
- Media Laboratory, Massachusetts Institute of Technology, 75 Amherst St, Cambridge, United States
| | - Ludovic Dutoit
- Department of Zoology, University of Otago, 340 Great King Street, Dunedin 9016, New Zealand
| | - Jackson Champer
- Center for Bioinformatics, School of Life Sciences, Peking-Tsinghua Center for Life Sciences, Peking University, Beijing, China
| | - Samuel E Champer
- Department of Computational Biology, Cornell University, 102 Tower Rd, Ithaca, NY 14853, United States
| | - Philipp W Messer
- Department of Computational Biology, Cornell University, 102 Tower Rd, Ithaca, NY 14853, United States
| | - Neil J Gemmell
- Department of Anatomy, School of Biomedical Sciences, University of Otago, 270 Great King Street, Central Dunedin, Dunedin 9016, New Zealand
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Wang S, Deng T, Zhang J, Li Y. Global economic costs of mammal invasions. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 857:159479. [PMID: 36265628 DOI: 10.1016/j.scitotenv.2022.159479] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/26/2022] [Revised: 10/05/2022] [Accepted: 10/12/2022] [Indexed: 06/16/2023]
Abstract
Invasive alien mammals cause huge adverse ecological impact on human society and natural ecosystems. Although studies have estimated economic costs of mammal invasions at regional scales, there is lacking the large-scale comprehensive assessment of currency costs for this taxon. Here, we estimated the economic cost of invasive alien mammals on a global scale using the most comprehensive global database compiling economic costs of invasive species (InvaCost). From 1960 to 2021, mammal invasions caused costs (summing damage costs and management costs) of US$ 462.49 billion to the global economy, while the total amount of robust costs reached US$ 52.49 billion. The majority of the total economic costs corresponded to damage costs (90.27 %), while only 7.43 % were related to management cost. Economic costs showed an increasing trend over time. The distribution of costs was uneven among taxonomic groups and regions, with the global total cost highly biasing toward to 5 species (European rabbit, Domestic cat, Black rat, Wild boar and Coypu), and North America reporting much higher costs (60.78 % of total economic costs) than other regions. The total costs were borne by agriculture, environment, authorities stakeholders and other sectors. Geographic and taxonomic biases suggested that total economic costs caused by invasive alien mammals were underestimated. Integrated research efforts are needed to fill in knowledge gaps in the economic costs generated by mammal invasions and to identify the drivers of the economic costs.
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Affiliation(s)
- Siqi Wang
- Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, 1 Beichen West Road, Chaoyang District, Beijing 100101, China; University of Chinese Academy of Sciences, 19 Yuquan Road, Shijingshan, Beijing 100049, China
| | - Teng Deng
- Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, 1 Beichen West Road, Chaoyang District, Beijing 100101, China; University of Chinese Academy of Sciences, 19 Yuquan Road, Shijingshan, Beijing 100049, China
| | - Jiaqi Zhang
- Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, 1 Beichen West Road, Chaoyang District, Beijing 100101, China; University of Chinese Academy of Sciences, 19 Yuquan Road, Shijingshan, Beijing 100049, China
| | - Yiming Li
- Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, 1 Beichen West Road, Chaoyang District, Beijing 100101, China; University of Chinese Academy of Sciences, 19 Yuquan Road, Shijingshan, Beijing 100049, China; School of Life Sciences, Institute of Life Sciences and Green Development, Hebei University, Baoding 071002, China.
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Cook B, Mulgan N. Targeted Mop up and Robust Response Tools Can Achieve and Maintain Possum Freedom on the Mainland. Animals (Basel) 2022; 12:ani12070921. [PMID: 35405909 PMCID: PMC8997055 DOI: 10.3390/ani12070921] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2022] [Revised: 03/19/2022] [Accepted: 04/01/2022] [Indexed: 11/16/2022] Open
Abstract
Unfenced sites on mainland New Zealand have long been considered impossible to defend from reinvasion by possums, and are thus unsuitable for eradication. In July 2019, we began eliminating possums from 11,642 ha (including approximately 8700 ha of suitable possum habitat) in South Westland, using alpine rivers and high alpine ranges to minimise reinvasion. Two aerial 1080 (sodium fluoroacetate) applications, each with two pre-feeds, were used. Here, we detail the effort to mop up existing possums and subsequent invaders in the 13 months following the aerial operation. Possums were detected and caught using a motion-activated camera network, traps equipped with automated reporting and a possum search dog. The last probable survivor was eliminated on 29 June 2020, 11 months after the initial removal operation. Subsequently, possums entered the site at a rate of 4 per year. These were detected and removed using the same methods. The initial elimination cost NZD 163.75/ha and ongoing detection and response NZD 15.70/ha annually. We compare costs with possum eradications on islands and ongoing suppression on the mainland.
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Affiliation(s)
- Briar Cook
- Tasman District Council, Richmond 7020, New Zealand
- Correspondence:
| | - Nick Mulgan
- Zero Invasive Predators, Wellington 6012, New Zealand;
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Kramer C, Boudreau MR, Miller RS, Powers R, VerCauteren K, Brook RK. Summer habitat use and movements of invasive wild pigs (Sus scrofa) in Canadian agro-ecosystems. CAN J ZOOL 2022. [DOI: 10.1139/cjz-2021-0116] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Resource selection informs understanding of a species’ ecology and is especially pertinent for invasive species. Since introduced to Canada, wild pigs (Sus scrofa Linnaeus, 1978) remain understudied despite recognized negative impacts to native and agricultural systems globally. Elsewhere in North America, pigs typically use forests and forage in agricultural crops. We hypothesized Canadian wild pigs would behave similarly and using GPS locations from 15 individuals we examined diel and seasonal resource selection and movement in the Canadian prairie region. Forests were predominately selected during the day, while corn (Zea mays L.), oilseeds, and wheat (Triticum aestivum L.) were predominately selected at night. Forests and corn were consistently selected throughout the growing season. Wetlands and forests showed greater use rates than other habitats, with evident trade-offs as crop use increased with the timing of maturation. Activity was consistent with foraging in growing crops. Results indicate diel patterns were likely a function of short-term needs to avoid daytime anthropogenic risk, while seasonal patterns demonstrate how habitats that fill multiple functional roles – food, cover, and thermoregulation – can be optimized. Understanding selection by invasive species is an important step in understanding their potential environmental impacts in novel environments and informs their management.
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Affiliation(s)
- Corey Kramer
- University of Saskatchewan College of Agriculture and Bioresources, 98627, Animal and Poultry Science, Saskatoon, Saskatchewan, Canada
| | - Melanie R. Boudreau
- Mississippi State University College of Forest Resources, 237137, Wildlife, Fisheries, and Aquaculture, Mississippi State, Mississippi, United States
| | | | - Ryan Powers
- USDA, 1097, Bismarck, North Dakota, United States
| | - Kurt VerCauteren
- USDA-APHIS National Wildlife Research Center, 93514, Fort Collins, Colorado, United States
| | - Ryan K. Brook
- University of Saskatchewan College of Agriculture and Bioresources, 98627, Department of Animal and Poultry Science & Indigenous Land Management Institute, Saskatoon, Saskatchewan, Canada,
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Hampton JO, Bengsen AJ, Pople A, Brennan M, Leeson M, Forsyth DM. Animal welfare outcomes of helicopter-based shooting of deer in Australia. WILDLIFE RESEARCH 2021. [DOI: 10.1071/wr21069] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
Abstract Context Helicopter-based shooting has been widely used to kill deer in Australasia, but the animal welfare outcomes of this technique have not been evaluated. Aim To assess the animal welfare outcomes of helicopter-based shooting of deer in Australia by quantifying the fates of deer seen and shot at, the duration of procedures and the number and location of bullet wounds in deer. Methods Three deer control operations were assessed. These operations targeted: (1) chital deer (Axis axis) in Queensland, (2) fallow deer (Dama dama) in Australian Capital Territory and (3) fallow deer in New South Wales. For each operation, an independent veterinarian conducted ante-mortem (i.e. from the helicopter as shooting occurred) and post-mortem (i.e. from the ground after shooting had ceased) observations. The ante-mortem data were used to estimate the proportion of deer seen that were shot, chase time (CT), time to insensibility (TTI) and total time (TT; CT + TTI). The numbers and locations of bullet wounds were recorded post-mortem. Key results Ante-mortem and post-mortem observations were performed for 114–318 and 60–105 deer, respectively, in the three operations. Shots were fired at 69–76% of deer that were observed. Median CT ranged from 73 to 145 s. Median TTI ranged from 17 to 37 s and median TT ranged from 109 to 162 s. The mean number of bullet wounds per deer ranged from 1.43 to 2.57. Animal welfare outcomes were better in the two fallow deer operations than in the chital deer operation. In both fallow deer operations, most deer were shot multiple times and at least once in the head or thorax. In contrast, chital deer were shot fewer times and less often in the head or thorax, and non-fatal wounding was observed. Conclusions The best animal welfare outcomes were achieved when helicopter-based shooting operations followed a fly-back procedure and mandated that multiple shots were fired into each animal. Implications Animal welfare outcomes for helicopter-based deer shooting in Australia could be improved with a national-level standard operating procedure requiring helicopters to fly back over shot animals and repeatedly shoot animals in the head or thorax.
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Kheirodin A, Sayari M, Schmidt JM. Rapid PCR-based method for herbivore dietary evaluation using plant-specific primers. PLoS One 2021; 16:e0260105. [PMID: 34807917 PMCID: PMC8608344 DOI: 10.1371/journal.pone.0260105] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2021] [Accepted: 11/02/2021] [Indexed: 12/01/2022] Open
Abstract
Polyphagous pests cause significant economic loss worldwide through feeding damage on various cash crops. However, their diets in agricultural landscapes remain largely unexplored. Pest dietary evaluation in agricultural fields is a challenging task currently approached through visual observation of plant feeding and microscopic identification of semi-digested plant material in pest’s guts. While molecular gut content analysis using metabarcoding approaches using universal primers (e.g., rbcl and trnL) have been successful in evaluating polyphagous pest diet, this method is relatively costly and time-consuming. Hence, there is a need for a rapid, specific, sensitive, and cost-effective method to screen for crops in the gut of pests. This is the first study to develop plant-specific primers that target various regions of their genomes, designed using a whole plant genome sequence. We selected Verticillium wilt disease resistance protein (VE-1) and pathogenesis related protein-coding genes 1–5 (PR-1-5) as our targets and designed species-specific primers for 14 important crops in the agroecosystems. Using amplicon sizes ranging from 115 to 407 bp, we developed two multiplex primer mixes that can separate nine and five plant species per PCR reaction, respectively. These two designed primer mixes provide a rapid, sensitive and specific route for polyphagous pest dietary evaluation in agroecosystems. This work will enable future research to rapidly expand our knowledge on the diet preference and range of crops that pests consume in various agroecosystems, which will help in the redesign and development of new crop rotation regimes to minimize polyphagous pest pressure and damage on crops.
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Affiliation(s)
- Arash Kheirodin
- Department of Entomology, University of Georgia, Tifton, GA, United States of America
- * E-mail:
| | - Mohammad Sayari
- Department of Plant Science, University of Manitoba, Winnipeg, MB, Canada
| | - Jason M. Schmidt
- Department of Entomology, University of Georgia, Tifton, GA, United States of America
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Latham ADM, Warburton B, Latham MC, Anderson DP, Howard SW, Binny RN. Detection probabilities and surveillance sensitivities for managing an invasive mammalian herbivore. Ecosphere 2021. [DOI: 10.1002/ecs2.3772] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022] Open
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Herath APHM, Wat KKY, Banks PB, McArthur C. Animal personality drives individual dietary specialisation across multiple dimensions in a mammalian herbivore. Funct Ecol 2021. [DOI: 10.1111/1365-2435.13893] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
| | - Katie K. Y. Wat
- School of Life and Environmental Sciences The University of Sydney Sydney NSW Australia
| | - Peter B. Banks
- School of Life and Environmental Sciences The University of Sydney Sydney NSW Australia
| | - Clare McArthur
- School of Life and Environmental Sciences The University of Sydney Sydney NSW Australia
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Efficacy and Animal Welfare Impacts of Novel Capture Methods for Two Species of Invasive Wild Mammals in New Zealand. Animals (Basel) 2019; 10:ani10010044. [PMID: 31878314 PMCID: PMC7022690 DOI: 10.3390/ani10010044] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2019] [Revised: 12/20/2019] [Accepted: 12/20/2019] [Indexed: 11/17/2022] Open
Abstract
All capture methods impose animal welfare impacts, but these impacts are rarely quantified or reported. We present data from two wildlife capture studies that trialled new methods for capturing Bennett's wallabies (Notamacropus rufogriseus) and red deer (Cervus elaphus) in New Zealand. We used helicopter net-gunning for both species, and compared this method with ground-based netting for wallabies and helicopter darting for red deer, using, for the first time in New Zealand, the fast-acting opioid thiafentanil. Efficacy and animal welfare parameters quantified were duration of handling and recovery, and frequency of adverse events, including escape, injury, and mortality. Cost-effectiveness was quantified for each method. Capture mortalities occurred for all methods for both species. For red deer, chemical immobilisation led to fewer traumatic injuries and fewer mortalities, while for wallabies, net-gunning led to fewer mortalities. Net-gunning was an efficient capture method for deer in open habitat, but led to the escape of 54% of wallabies and one wallaby mortality (4%). Ground-based netting resulted in the mortality of 17% of wallabies at the time of capture, and the capture of non-target species. The cost per captured wallaby was 40% more expensive for net-gunning (NZ$1045) than for ground-based netting (NZ$745), but, once corrected for mortalities at the time of capture and suitability of individuals for GPS-collar deployment, this was reduced to 29% and 12% more expensive, respectively. Net-gunning for red deer resulted in the escape of 13% of animals and mortality of 10% of animals at the time of capture. Helicopter-based darting for red deer using thiafentanil (c. 0.03-0.06 mg/kg) had high capture efficacy (zero escapes), rapid induction times (mean of 3 min), and a low mortality rate at 14 days post-capture (3%), but it was more expensive per deer captured and collared than aerial netting (NZ$2677 and NZ$2234, respectively). We recommend reporting of adverse event data for all wildlife capture techniques to permit continual refinement of field methods.
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