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      Exploring the Niche of Rickettsia montanensis (Rickettsiales: Rickettsiaceae) Infection of the American Dog Tick (Acari: Ixodidae), Using Multiple Species Distribution Model Approaches

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          Abstract

          The American dog tick, Dermacentor variabilis (Say) (Acari: Ixodidae), is a vector for several human disease-causing pathogens such as tularemia, Rocky Mountain spotted fever, and the understudied spotted fever group rickettsiae (SFGR) infection caused by Rickettsia montanensis. It is important for public health planning and intervention to understand the distribution of this tick and pathogen encounter risk. Risk is often described in terms of vector distribution, but greatest risk may be concentrated where more vectors are positive for a given pathogen. When assessing species distributions, the choice of modeling framework and spatial layers used to make predictions are important. We first updated the modeled distribution of D. variabilis and R. montanensis using maximum entropy (MaxEnt), refining bioclimatic data inputs, and including soil variables. We then compared geospatial predictions from five species distribution modeling frameworks. In contrast to previous work, we additionally assessed whether the R. montanensis positive D. variabilis distribution is nested within a larger overall D. variabilis distribution, representing a fitness cost hypothesis. We found that 1) adding soil layers improved the accuracy of the MaxEnt model; 2) the predicted ‘infected niche’ was smaller than the overall predicted niche across all models; and 3) each model predicted different sizes of suitable niche, at different levels of probability. Importantly, the models were not directly comparable in output style, which could create confusion in interpretation when developing planning tools. The random forest (RF) model had the best measured validity and fit, suggesting it may be most appropriate to these data.

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            WorldClim 2: new 1-km spatial resolution climate surfaces for global land areas

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              A working guide to boosted regression trees.

              1. Ecologists use statistical models for both explanation and prediction, and need techniques that are flexible enough to express typical features of their data, such as nonlinearities and interactions. 2. This study provides a working guide to boosted regression trees (BRT), an ensemble method for fitting statistical models that differs fundamentally from conventional techniques that aim to fit a single parsimonious model. Boosted regression trees combine the strengths of two algorithms: regression trees (models that relate a response to their predictors by recursive binary splits) and boosting (an adaptive method for combining many simple models to give improved predictive performance). The final BRT model can be understood as an additive regression model in which individual terms are simple trees, fitted in a forward, stagewise fashion. 3. Boosted regression trees incorporate important advantages of tree-based methods, handling different types of predictor variables and accommodating missing data. They have no need for prior data transformation or elimination of outliers, can fit complex nonlinear relationships, and automatically handle interaction effects between predictors. Fitting multiple trees in BRT overcomes the biggest drawback of single tree models: their relatively poor predictive performance. Although BRT models are complex, they can be summarized in ways that give powerful ecological insight, and their predictive performance is superior to most traditional modelling methods. 4. The unique features of BRT raise a number of practical issues in model fitting. We demonstrate the practicalities and advantages of using BRT through a distributional analysis of the short-finned eel (Anguilla australis Richardson), a native freshwater fish of New Zealand. We use a data set of over 13 000 sites to illustrate effects of several settings, and then fit and interpret a model using a subset of the data. We provide code and a tutorial to enable the wider use of BRT by ecologists.
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                Author and article information

                Contributors
                Role: Subject Editor
                Journal
                J Med Entomol
                J Med Entomol
                jme
                Journal of Medical Entomology
                Oxford University Press (US )
                0022-2585
                1938-2928
                May 2021
                04 December 2020
                04 December 2020
                : 58
                : 3
                : 1083-1092
                Affiliations
                [1 ] Quantitative Disease Ecology and Conservation (QDEC) Lab Group, Department of Geography, University of Florida , Gainesville, FL
                [2 ] Emerging Pathogens Institute, University of Florida , Gainesville, FL
                [3 ] Department of Biological Sciences, Old Dominion University , Norfolk, VA
                [4 ] School of Mathematics, Statistics and Computer Science, University of KwaZulu-Natal , Durban, South Africa
                [5 ] Viral and Rickettsial Disease Program (VRDD) Naval Medical Research Center , Silver Spring, MD
                [6 ] Henry M. Jackson Foundation for the Advancement of Military Medicine , 6720A Rockledge Dr, Bethesda, MD
                [7 ] School of Life Sciences, University of KwaZulu-Natal , Durban, South Africa
                Author notes
                Corresponding author, e-mail: sjryan@ 123456ufl.edu
                Author information
                https://orcid.org/0000-0002-4034-2684
                https://orcid.org/0000-0003-3289-5497
                https://orcid.org/0000-0002-4308-6321
                Article
                tjaa263
                10.1093/jme/tjaa263
                8122238
                33274379
                a02c18a7-8f40-4252-b4c8-a8501c80e46f
                © The Author(s) 2020. Published by Oxford University Press on behalf of Entomological Society of America.

                This is an Open Access article distributed under the terms of the Creative Commons Attribution-NonCommercial-NoDerivs licence ( http://creativecommons.org/licenses/by-nc-nd/4.0/), which permits non-commercial reproduction and distribution of the work, in any medium, provided the original work is not altered or transformed in any way, and that the work is properly cited. For commercial re-use, please contact journals.permissions@oup.com

                History
                : 07 August 2020
                : 22 October 2020
                Page count
                Pages: 10
                Funding
                Funded by: National Institutes of Health, DOI 10.13039/100000002;
                Award ID: 1R01AI136035
                Funded by: Centers for Disease Control and Prevention, DOI 10.13039/100000030;
                Award ID: 1U01CK000510-01
                Funded by: Department of Defense Global Emerging Infections System;
                Award ID: 000188M.0931.001.A0074
                Categories
                Modeling/Gis, Risk Assessment, Economic Impact
                AcademicSubjects/SCI01382
                AcademicSubjects/MED00860

                species distribution model,ecological niche model,boosted regression trees,maxent,random forest

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