@article{kim_koop_fowler_israel_takeuchi_lieurance_2023, title={Addition of finer scale data and uncertainty analysis increases precision of geospatial suitability model for non-native plants in the US}, volume={484}, ISSN={["1872-7026"]}, url={http://dx.doi.org/10.1016/j.ecolmodel.2023.110458}, DOI={10.1016/j.ecolmodel.2023.110458}, abstractNote={“Proto3” is a geospatial model used by the United States Department of Agriculture (USDA) Plant Protection and Quarantine to predict the potential distribution of non-native weed species in the continental U.S. as part of routine weed risk assessments (WRA). While performing as well as other methods, this tool has the benefit of being simple to produce, expanding accessibility and reproducibility. However, it has the tendency to overestimate potential distributions. To address this shortcoming, this paper introduces the “Proto4” model and compares it with the established and mechanistically similar “Proto3” model currently used. Both models overlay Plant Hardiness Zones, precipitation, and Köppen-Geiger climate classes with global distribution of a plant species and rely on semi-qualitative assessments of a plant's affinity for each of the climate categories. However, Proto4 uses more detailed layers of the Plant Hardiness Zones and Köppen-Geiger climate classes, adds elevation as a fourth predictive variable to increase the precision of predictive maps. Additionally, we incorporate uncertainty to spatially distinguish regions of different potential suitability. We compared the performance of both models by estimating the predicted distributions of 30 broadly distributed, invasive plants in the U.S. with Proto3 and Proto4. We found that on average, the Proto4 model produces predicted distributions that are nearly 780,000 square kilometers (an area larger than the state of Texas) smaller than the Proto3, while only failing to capture a median of fewer than 0.5% more georeferenced points. Furthermore, the inclusion of uncertainty classes adds to the utility of Proto4 by distinguishing areas with greater and lesser degrees of evidence that a particular area is suitable for an invasive species, providing more information to help select invasive species prevention and management prioritization strategies.}, journal={ECOLOGICAL MODELLING}, publisher={Elsevier BV}, author={Kim, Seokmin and Koop, Anthony and Fowler, Glenn and Israel, Kimberly and Takeuchi, Yu and Lieurance, Deah}, year={2023}, month={Oct} }
 @article{takeuchi_tripodi_montgomery_2023, title={SAFARIS: a spatial analytic framework for pest forecast systems}, volume={3}, ISSN={["2673-8600"]}, url={http://dx.doi.org/10.3389/finsc.2023.1198355}, DOI={10.3389/finsc.2023.1198355}, abstractNote={Non-native pests and diseases pose a risk of economic and environmental damage to managed and natural U.S. forests and agriculture. The U.S. Department of Agriculture (USDA) Animal and Plant Health Inspection Service (APHIS) Plant Protection and Quarantine (PPQ) protects the health of U.S. agriculture and natural resources against invasive pests and diseases through efforts to prevent the entry, establishment, and spread of non-native pests and diseases. Because each pest or disease has its own idiosyncratic characteristics, analyzing risk is highly complex. To help PPQ better respond to pest and disease threats, we developed the Spatial Analytic Framework for Advanced Risk Information Systems (SAFARIS), an integrated system designed to provide a seamless environment for producing predictive models. SAFARIS integrates pest biology information, climate and non-climate data drivers, and predictive models to provide users with readily accessible and easily customizable tools to analyze pest and disease risks. The phenology prediction models, spread forecasting models, and other climate-based analytical tools in SAFARIS help users understand which areas are suitable for establishment, when surveys would be most fruitful, and aid in other analyses that inform decision-making, operational efforts, and rapid response. Here we introduce the components of SAFARIS and provide two use cases demonstrating how pest-specific models developed with SAFARIS tools support PPQ in its mission. Although SAFARIS is designed to address the needs of PPQ, the flexible, web-based framework is publicly available, allowing any user to leverage the available data and tools to model pest and disease risks.}, journal={FRONTIERS IN INSECT SCIENCE}, publisher={Frontiers Media SA}, author={Takeuchi, Yu and Tripodi, Amber and Montgomery, Kellyn}, year={2023}, month={Jul} }
 @article{montgomery_petras_takeuchi_katsar_2022, title={Contaminated consignment simulation to support risk-based inspection design}, volume={5}, ISSN={["1539-6924"]}, url={https://doi.org/10.1111/risa.13943}, DOI={10.1111/risa.13943}, abstractNote={Abstract}, journal={RISK ANALYSIS}, author={Montgomery, Kellyn and Petras, Vaclav and Takeuchi, Yu and Katsar, Catherine S.}, year={2022}, month={May} }
 @article{takeuchi_benavides_johnson_follett_hossain_navarro_giraldo_2022, title={Pathway analysis: Likelihood of coffee berry borer (Hypothenemus hampei Ferrari) introduction into the Hawaiian Islands by air passenger travel}, publisher={Hawaiian Entomological Society}, author={Takeuchi, Yu and Benavides, Pablo and Johnson, Melissa A and Follett, Peter A and Hossain, Mohammad Khalid and Navarro, Lucio and Giraldo, Marisol}, year={2022} }
 @article{kim_hantula_kaitera_zambino_woodward_richardson_stewart_spaine_shaw_takeuchi_et al._2022, title={Recovery Plan for Scots Pine Blister Rust Caused by Cronartium pini}, volume={23}, ISSN={["1535-1025"]}, url={https://doi.org/10.1094/PHP-06-21-0099-RP}, DOI={10.1094/PHP-06-21-0099-RP}, abstractNote={ Scots pine blister rust caused by Cronartium pini, which includes the fungal rust pathogen with either a heteroecious life cycle (previously known as Cronartium flaccidum) or an autoecious life cycle (formerly known as Peridermium pini or Endocronartium pini), is capable of infecting many Eurasian pines including Pinus sylvestris (Scots pine). The heteroecious form of C. pini completes its life cycle alternating between pines and various species of flowering plants (Angiospermae); the related autoecious form spreads directly from pine to pine. If the Scots pine blister rust pathogen possesses or gains the capacity to infect North American pines, the economic and ecological impacts could be significant. Scots pine is one of the most widely distributed conifers in the world, and it has become naturalized in the northeastern and midwestern United States. Scots pine blister rust is also called resin-top disease and top-dieback of pine. Symptoms in pine include stem swelling, branch flagging, excessive pitch flow, and top-kill, and, in the alternate hosts, leaf spotting. The rust pathogen is spread in nature by wind-borne spores, which require live hosts for infection. However, the rust pathogen can also be transported on infected plant materials that can be nonsymptomatic. Early infections of host plant infections by C. pini are difficult to detect and diagnose, but molecular techniques offer a potential approach for early detection and diagnosis. This recovery plan is intended to provide a brief summary of the disease, assess the status of critical recovery components, and identify disease management research, extension, and education needs. }, number={1}, journal={PLANT HEALTH PROGRESS}, publisher={Scientific Societies}, author={Kim, Mee-Sook and Hantula, Jarkko and Kaitera, Juha and Zambino, Paul J. and Woodward, Stephen and Richardson, Bryce A. and Stewart, Jane E. and Spaine, Pauline and Shaw, David C. and Takeuchi, Yu and et al.}, year={2022}, pages={105–130} }
 @article{jones_skrip_seliger_jones_wakie_takeuchi_petras_petrasova_meentemeyer_2022, title={Spotted lanternfly predicted to establish in California by 2033 without preventative management}, volume={5}, ISSN={["2399-3642"]}, url={https://doi.org/10.1038/s42003-022-03447-0}, DOI={10.1038/s42003-022-03447-0}, abstractNote={Abstract}, number={1}, journal={COMMUNICATIONS BIOLOGY}, author={Jones, Chris and Skrip, Megan M. and Seliger, Benjamin J. and Jones, Shannon and Wakie, Tewodros and Takeuchi, Yu and Petras, Vaclav and Petrasova, Anna and Meentemeyer, Ross K.}, year={2022}, month={Jun} }
 @misc{xia_ouyang_takeuchi_2021, title={A Brief Review of Resseliella citrifrugis (Diptera: Cecidomyiidae), a Lesser-Known Destructive Citrus Fruit Pest}, volume={12}, ISSN={["2155-7470"]}, url={https://doi.org/10.1093/jipm/pmab033}, DOI={10.1093/jipm/pmab033}, abstractNote={Abstract}, number={1}, journal={JOURNAL OF INTEGRATED PEST MANAGEMENT}, publisher={Oxford University Press (OUP)}, author={Xia, Yulu and Ouyang, Ge-Cheng and Takeuchi, Yu}, editor={Tindall, KellyEditor}, year={2021}, month={Jan} }
 @article{jones_jones_petrasova_petras_gaydos_skrip_takeuchi_bigsby_meentemeyer_2021, title={Iteratively forecasting biological invasions with PoPS and a little help from our friends}, volume={6}, ISSN={["1540-9309"]}, url={http://dx.doi.org/10.1002/fee.2357}, DOI={10.1002/fee.2357}, abstractNote={Ecological forecasting has vast potential to support environmental decision making with repeated, testable predictions across management‐relevant timescales and locations. Yet resource managers rarely use co‐designed forecasting systems or embed them in decision making. Although prediction of planned management outcomes is particularly important for biological invasions to optimize when and where resources should be allocated, spatial–temporal models of spread typically have not been openly shared, iteratively updated, or interactive to facilitate exploration of management actions. We describe a species‐agnostic, open‐source framework – called the Pest or Pathogen Spread (PoPS) Forecasting Platform – for co‐designing near‐term iterative forecasts of biological invasions. Two case studies are presented to demonstrate that iterative calibration yields higher forecast skill than using only the earliest‐available data to predict future spread. The PoPS framework is a primary example of an ecological forecasting system that has been both scientifically improved and optimized for real‐world decision making through sustained participation and use by management stakeholders.}, number={7}, journal={FRONTIERS IN ECOLOGY AND THE ENVIRONMENT}, publisher={Wiley}, author={Jones, Chris M. and Jones, Shannon and Petrasova, Anna and Petras, Vaclav and Gaydos, Devon and Skrip, Megan M. and Takeuchi, Yu and Bigsby, Kevin and Meentemeyer, Ross K.}, year={2021}, month={Jun} }
 @article{takeuchi_koch_nelson_2021, title={Recent Immigrant Insect Fauna-Another Look at a Classic Analysis}, volume={12}, ISSN={["2155-7470"]}, url={https://doi.org/10.1093/jipm/pmab034}, DOI={10.1093/jipm/pmab034}, abstractNote={Abstract}, number={1}, journal={JOURNAL OF INTEGRATED PEST MANAGEMENT}, publisher={Oxford University Press (OUP)}, author={Takeuchi, Yu and Koch, Frank H. and Nelson, Stacy A. C.}, editor={Green, JodyEditor}, year={2021}, month={Jan} }
 @article{krishnankutty_bigsby_hastings_takeuchi_wu_lingafelter_nadel_myers_ray_jeffrey_2020, title={Predicting Establishment Potential of an Invasive Wood-Boring Beetle, Trichoferus campestris (Coleoptera: Cerambycidae) in the United States}, volume={113}, url={http://www.scopus.com/inward/record.url?eid=2-s2.0-85084134943&partnerID=MN8TOARS}, DOI={10.1093/aesa/saz051}, abstractNote={Abstract}, number={2}, journal={Annals of the Entomological Society of America}, author={Krishnankutty, S.M. and Bigsby, K. and Hastings, J. and Takeuchi, Y. and Wu, Y. and Lingafelter, S.W. and Nadel, H. and Myers, S.W. and Ray, A.M. and Jeffrey, M.}, year={2020}, pages={88–99} }
 @article{magarey_newton_hong_takeuchi_christie_jarnevich_kohl_damus_higgins_millar_et al._2018, title={Comparison of four modeling tools for the prediction of potential distribution for non-indigenous weeds in the United States}, volume={20}, ISSN={["1573-1464"]}, url={http://www.scopus.com/inward/record.url?eid=2-s2.0-85029595135&partnerID=MN8TOARS}, DOI={10.1007/s10530-017-1567-1}, number={3}, journal={BIOLOGICAL INVASIONS}, publisher={Springer Science and Business Media LLC}, author={Magarey, Roger and Newton, Leslie and Hong, Seung Cheon and Takeuchi, Yu and Christie, David and Jarnevich, Catherine S. and Kohl, Lisa and Damus, Martin and Higgins, Steven I. and Millar, Leah and et al.}, year={2018}, month={Mar}, pages={679–694} }
 @article{graham_gottwald_timmer_filho_van den bosch_irey_taylor_magarey_takeuchi_2014, title={Response to "Potential distribution of citrus black spot in the United States based on climatic conditions", Er et al. 2013}, volume={139}, url={http://www.scopus.com/inward/record.url?eid=2-s2.0-84899736286&partnerID=MN8TOARS}, DOI={10.1007/s10658-014-0426-5}, number={2}, journal={European Journal of Plant Pathology}, author={Graham, J.H. and Gottwald, T.R. and Timmer, L.W. and Filho, A.B. and Van Den Bosch, F. and Irey, M.S. and Taylor, E. and Magarey, R.D. and Takeuchi, Y.}, year={2014}, pages={231–234} }
 @article{graham_gottwald_timmer_bergamin_bosch_irey_taylor_magarey_takeuchi_2014, title={Response to "Potential distribution of citrus black spot in the United States based on climatic conditions", Er et al. 2013}, volume={139}, number={2}, journal={European Journal of Plant Pathology}, author={Graham, J. H. and Gottwald, T. R. and Timmer, L. W. and Bergamin, A. and Bosch, F. and Irey, M. S. and Taylor, E. and Magarey, R. D. and Takeuchi, Y.}, year={2014}, pages={231–234} }
 @inbook{fowler_takeuchi_2012, title={Mapping, climate and geographic information for risk analysis}, url={http://www.scopus.com/inward/record.url?eid=2-s2.0-84890230584&partnerID=MN8TOARS}, booktitle={Plant Pest Risk Analysis: Concepts and Application}, author={Fowler, G. and Takeuchi, T.}, year={2012}, pages={151–163} }
 @article{kubiske_zak_pregitzer_takeuchi_2002, title={Photosynthetic acclimation of overstory Populus tremuloides and understory Acer saccharum to elevated atmospheric CO<inf>2</inf> concentration: Interactions with shade and soil nitrogen}, volume={22}, url={http://www.scopus.com/inward/record.url?eid=2-s2.0-0036000103&partnerID=MN8TOARS}, DOI={10.1093/treephys/22.5.321}, abstractNote={We exposed Populus tremuloides Michx. and Acer saccharum Marsh. to a factorial combination of ambient and elevated atmospheric CO2 concentrations ([CO2]) and high-nitrogen (N) and low-N soil treatments in open-top chambers for 3 years. Our objective was to compare photosynthetic acclimation to elevated [CO2] between species of contrasting shade tolerance, and to determine if soil N or shading modify the acclimation response. Sun and shade leaf responses to elevated [CO2] and soil N were compared between upper and lower canopy leaves of P. tremuloides and between A. saccharum seedlings grown with and without shading by P. tremuloides. Both species had higher leaf N concentrations and photosynthetic rates in high-N soil than in low-N soil, and these characteristics were higher for P. tremuloides than for A. saccharum. Electron transport capacity (Jmax) and carboxylation capacity (Vcmax) generally decreased with atmospheric CO2 enrichment in all 3 years of the experiment, but there was no evidence that elevated [CO2] altered the relationship between them. On a leaf area basis, both Jmax and Vcmax acclimated to elevated [CO2] more strongly in shade leaves than in sun leaves of P. tremuloides. However, the apparent [CO2] x shade interaction was largely driven by differences in specific leaf area (m2 g-1) between sun and shade leaves. In A. saccharum, photosynthesis acclimated more strongly to elevated [CO2] in sun leaves than in shade leaves on both leaf area and mass bases. We conclude that trees rooted freely in the ground can exhibit photosynthetic acclimation to elevated [CO2], and the response may be modified by light environment. The hypothesis that photosynthesis acclimates more completely to elevated [CO2] in shade-tolerant species than in shade-intolerant species was not supported.}, number={5}, journal={Tree Physiology}, author={Kubiske, M.E. and Zak, D.R. and Pregitzer, K.S. and Takeuchi, Y.}, year={2002}, pages={321–329} }
 @article{takeuchi_kubiske_isebrands_pregtizer_hendrey_karnosky_2001, title={Photosynthesis, light and nitrogen relationships in a young deciduous forest canopy under open-air CO<inf>2</inf> enrichment}, volume={24}, url={http://www.scopus.com/inward/record.url?eid=2-s2.0-0035666015&partnerID=MN8TOARS}, DOI={10.1046/j.0016-8025.2001.00787.x}, abstractNote={Abstract}, number={12}, journal={Plant, Cell and Environment}, author={Takeuchi, Y. and Kubiske, M.E. and Isebrands, J.G. and Pregtizer, K.S. and Hendrey, G. and Karnosky, D.F.}, year={2001}, pages={1257–1268} }