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Esson C, Samelius G, Strand TM, Lundkvist Å, Michaux JR, Råsbäck T, Wahab T, Mijiddorj TN, Berger L, Skerratt LF, Low M. The prevalence of rodent-borne zoonotic pathogens in the South Gobi desert region of Mongolia. Infect Ecol Epidemiol 2023; 13:2270258. [PMID: 37867606 PMCID: PMC10588514 DOI: 10.1080/20008686.2023.2270258] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2022] [Accepted: 10/09/2023] [Indexed: 10/24/2023] Open
Abstract
The alpine ecosystems and communities of central Asia are currently undergoing large-scale ecological and socio-ecological changes likely to affect wildlife-livestock-human disease interactions and zoonosis transmission risk. However, relatively little is known about the prevalence of pathogens in this region. Between 2012 and 2015 we screened 142 rodents in Mongolia's Gobi desert for exposure to important zoonotic and livestock pathogens. Rodent seroprevalence to Leptospira spp. was >1/3 of tested animals, Toxoplasma gondii and Coxiella burnetii approximately 1/8 animals, and the hantaviruses being between 1/20 (Puumala-like hantavirus) and <1/100 (Seoul-like hantavirus). Gerbils trapped inside local dwellings were one of the species seropositive to Puumala-like hantavirus, suggesting a potential zoonotic transmission pathway. Seventeen genera of zoonotic bacteria were also detected in the faeces and ticks collected from these rodents, with one tick testing positive to Yersinia. Our study helps provide baseline patterns of disease prevalence needed to infer potential transmission between source and target populations in this region, and to help shift the focus of epidemiological research towards understanding disease transmission among species and proactive disease mitigation strategies within a broader One Health framework.
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Affiliation(s)
- Carol Esson
- One Health Research Group, Medical and Veterinary Sciences, James Cook University, Townsville, Queensland, Australia
| | - Gustaf Samelius
- Snow Leopard Trust, Seattle, Washington, USA
- Nordens Ark, Åby Säteri, Hunnebostrand, Sweden
| | - Tanja M. Strand
- Zoonosis Science Centre, Department of Medical Biochemistry and Microbiology, Uppsala University, Uppsala, Sweden
- National Veterinary Institute (SVA), Uppsala, Sweden
| | - Åke Lundkvist
- Zoonosis Science Centre, Department of Medical Biochemistry and Microbiology, Uppsala University, Uppsala, Sweden
| | - Johan R. Michaux
- Laboratoire de génétique de la conservation, Institut de Botanique, Université de Liège, Liège, Belgium
- Animal Sante Territoire Risque Environnement, Centre International de Recherche Agronomique pour le Developpement, Institut National de la Recherche Agronomique, Université de Montpellier, Montpellier, France
| | | | - Tara Wahab
- Public Health Agency of Sweden, Stockholm, Sweden
| | | | - Lee Berger
- One Health Research Group, Melbourne Veterinary School, University of Melbourne, Melbourne, Victoria, Australia
| | - Lee F. Skerratt
- One Health Research Group, Melbourne Veterinary School, University of Melbourne, Melbourne, Victoria, Australia
| | - Matthew Low
- Department of Ecology, Swedish University of Agricultural Sciences, Uppsala, Sweden
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Ayala AJ, Ogbunugafor CB. When Vibrios Take Flight: A Meta-Analysis of Pathogenic Vibrio Species in Wild and Domestic Birds. Adv Exp Med Biol 2023; 1404:295-336. [PMID: 36792882 DOI: 10.1007/978-3-031-22997-8_15] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/17/2023]
Abstract
Of the over 100 species in the genus Vibrio, approximately twelve are associated with clinical disease, such as cholera and vibriosis. Crucially, eleven of those twelve, including Vibrio cholerae and Vibrio vulnificus, have been isolated from birds. Since 1965, pathogenic Vibrio species have been consistently isolated from aquatic and ground-foraging bird species, which has implications for public health, as well as the One Health paradigm defined as an ecology-inspired, integrative framework for the study of health and disease, inclusive of environmental, human, and animal health. In this meta-analysis, we identified 76 studies from the primary literature which report on or examine birds as hosts for pathogenic Vibrio species. We found that the burden of disease in birds was most commonly associated with V. cholerae, followed by V. metschnikovii and V. parahaemolyticus. Meta-analysis wide prevalence of our Vibrio pathogens varied from 19% for V. parahaemolyticus to 1% for V. mimicus. Wild and domestic birds were both affected, which may have implications for conservation, as well as agriculturally associated avian species. As pathogenic Vibrios become more abundant throughout the world as a result of warming estuaries and oceans, susceptible avian species should be continually monitored as potential reservoirs for these pathogens.
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Affiliation(s)
- Andrea J Ayala
- Department of Ecology and Evolutionary Biology, Yale University, New Haven, CT, USA
| | - C Brandon Ogbunugafor
- Department of Ecology and Evolutionary Biology, Yale University, New Haven, CT, USA.
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Honarvar H, Agarwal C, Somani S, Vaid A, Lampert J, Wanyan T, Reddy VY, Nadkarni GN, Miotto R, Zitnik M, Wang F, Glicksberg BS. Enhancing convolutional neural network predictions of electrocardiograms with left ventricular dysfunction using a novel sub-waveform representation. Cardiovascular Digital Health Journal 2022; 3:220-231. [PMID: 36310683 PMCID: PMC9596304 DOI: 10.1016/j.cvdhj.2022.07.074] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/03/2022] Open
Abstract
Background Electrocardiogram (ECG) deep learning (DL) has promise to improve the outcomes of patients with cardiovascular abnormalities. In ECG DL, researchers often use convolutional neural networks (CNNs) and traditionally use the full duration of raw ECG waveforms that create redundancies in feature learning and result in inaccurate predictions with large uncertainties. Objective For enhancing these predictions, we introduced a sub-waveform representation that leverages the rhythmic pattern of ECG waveforms (data-centric approach) rather than changing the CNN architecture (model-centric approach). Results We applied the proposed representation to a population with 92,446 patients to identify left ventricular dysfunction. We found that the sub-waveform representation increases the performance metrics compared to the full-waveform representation. We observed a 2% increase for area under the receiver operating characteristic curve and 10% increase for area under the precision-recall curve. We also carefully examined three reliability components of explainability, interpretability, and fairness. We provided an explanation for enhancements obtained by heartbeat alignment mechanism. By developing a new scoring system, we interpreted the clinical relevance of ECG features and showed that sub-waveform representation further pushes the scores towards clinical predictions. Finally, we showed that the new representation significantly reduces prediction uncertainties within subgroups that contributes to individual fairness. Conclusion We expect that this added control over the granularity of ECG data will improve the DL modeling for new artificial intelligence technologies in the cardiovascular space.
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Affiliation(s)
- Hossein Honarvar
- Hasso Plattner Institute for Digital Health at Mount Sinai, Icahn School of Medicine at Mount Sinai, New York, New York
| | - Chirag Agarwal
- Department of Biomedical Informatics, Harvard University, Boston, Massachusetts
| | - Sulaiman Somani
- Hasso Plattner Institute for Digital Health at Mount Sinai, Icahn School of Medicine at Mount Sinai, New York, New York
| | - Akhil Vaid
- Hasso Plattner Institute for Digital Health at Mount Sinai, Icahn School of Medicine at Mount Sinai, New York, New York
| | - Joshua Lampert
- Helmsley Center for Cardiac Electrophysiology, Mount Sinai Hospital, New York, New York
| | - Tingyi Wanyan
- Hasso Plattner Institute for Digital Health at Mount Sinai, Icahn School of Medicine at Mount Sinai, New York, New York
- School of Informatics, Computing, and Engineering, Indiana University, Bloomington, Indiana
| | - Vivek Y. Reddy
- Helmsley Center for Cardiac Electrophysiology, Mount Sinai Hospital, New York, New York
| | - Girish N. Nadkarni
- Hasso Plattner Institute for Digital Health at Mount Sinai, Icahn School of Medicine at Mount Sinai, New York, New York
- Division of Nephrology, Department of Medicine, Icahn School of Medicine at Mount Sinai, New York, New York
- The Charles Bronfman Institute for Personalized Medicine, Icahn School of Medicine at Mount Sinai, New York, New York
| | - Riccardo Miotto
- Hasso Plattner Institute for Digital Health at Mount Sinai, Icahn School of Medicine at Mount Sinai, New York, New York
| | - Marinka Zitnik
- Department of Biomedical Informatics, Harvard University, Boston, Massachusetts
| | - Fei Wang
- Department of Population Health Sciences, Weill Cornell Medicine, New York, New York
| | - Benjamin S. Glicksberg
- Hasso Plattner Institute for Digital Health at Mount Sinai, Icahn School of Medicine at Mount Sinai, New York, New York
- Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, New York, New York
- Address reprint requests and correspondence: Dr Benjamin S. Glicksberg, Icahn School of Medicine at Mount Sinai, 1 Gustave L. Levy Pl, New York, NY 10029.
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Schilling A, Mazzamuto MV, Romeo C. A Review of Non-Invasive Sampling in Wildlife Disease and Health Research: What’s New? Animals (Basel) 2022; 12:1719. [PMID: 35804619 PMCID: PMC9265025 DOI: 10.3390/ani12131719] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2022] [Revised: 06/28/2022] [Accepted: 06/29/2022] [Indexed: 12/14/2022] Open
Abstract
Simple Summary The interest in wildlife research has increased in the last decades as more scientists work within a One Health framework that regards human, livestock and wildlife health as connected entities. To minimise the impact of research on wildlife, collecting samples with as little disturbance of the animals as possible is important. In our review, we assess the use of so-called non-invasive sampling and summarise which samples can be used successfully when carrying out research on wildlife diseases and health status. Our results show that interest in minimally invasive sampling has steadily increased since the 2010s. Topics able to employ these methods include disease research, but also stress and other hormone assessments, pollution studies, and dietary studies. At the moment, such methods are mainly used to collect samples from land mammals, however, they can also be used in a wide range of other animals. Ever more capable analytical methods will allow for an even wider use of such “animal-friendly” sampling methods. Abstract In the last decades, wildlife diseases and the health status of animal populations have gained increasing attention from the scientific community as part of a One Health framework. Furthermore, the need for non-invasive sampling methods with a minimal impact on wildlife has become paramount in complying with modern ethical standards and regulations, and to collect high-quality and unbiased data. We analysed the publication trends on non-invasive sampling in wildlife health and disease research and offer a comprehensive review on the different samples that can be collected non-invasively. We retrieved 272 articles spanning from 1998 to 2021, with a rapid increase in number from 2010. Thirty-nine percent of the papers were focussed on diseases, 58% on other health-related topics, and 3% on both. Stress and other physiological parameters were the most addressed research topics, followed by viruses, helminths, and bacterial infections. Terrestrial mammals accounted for 75% of all publications, and faeces were the most widely used sample. Our review of the sampling materials and collection methods highlights that, although the use of some types of samples for specific applications is now consolidated, others are perhaps still underutilised and new technologies may offer future opportunities for an even wider use of non-invasively collected samples.
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Shanebeck KM, Besson AA, Lagrue C, Green SJ. The energetic costs of sub-lethal helminth parasites in mammals: a meta-analysis. Biol Rev Camb Philos Soc 2022; 97:1886-1907. [PMID: 35678252 DOI: 10.1111/brv.12867] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2021] [Revised: 05/02/2022] [Accepted: 05/05/2022] [Indexed: 01/07/2023]
Abstract
Parasites, by definition, have a negative effect on their host. However, in wild mammal health and conservation research, sub-lethal infections are commonly assumed to have negligible health effects unless parasites are present in overwhelming numbers. Here, we propose a definition for host health in mammals that includes sub-lethal effects of parasites on the host's capacity to adapt to the environment and maintain homeostasis. We synthesized the growing number of studies on helminth parasites in mammals to assess evidence for the relative magnitude of sub-lethal effects of infection across mammal taxa based on this expanded definition. Specifically, we develop and apply a framework for organizing disparate metrics of parasite effects on host health and body condition according to their impact on an animal's energetic condition, defined as the energetic burden of pathogens on host physiological and behavioural functions that relate directly to fitness. Applying this framework within a global meta-analysis of helminth parasites in wild, laboratory and domestic mammal hosts produced 142 peer-reviewed studies documenting 599 infection-condition effects. Analysing these data within a multiple working hypotheses framework allowed us to evaluate the relative weighted contribution of methodological (study design, sampling protocol, parasite quantification methods) and biological (phylogenetic relationships and host/parasite life history) moderators to variation in the magnitude of health effects. We found consistently strong negative effects of infection on host energetic condition across taxonomic groups, with unusually low heterogeneity in effect sizes when compared with other ecological meta-analyses. Observed effect size was significantly lower within cross-sectional studies (i.e. observational studies that investigated a sub-set of a population at a single point in time), the most prevalent methodology. Furthermore, opportunistic sampling led to a weaker negative effect compared to proactive sampling. In the model of host taxonomic group, the effect of infection on energetic condition in carnivores was not significant. However, when sampling method was included, it explained substantial inter-study variance; proactive sampling showing a strongly significant negative effect while opportunistic sampling detected only a weak, non-significant effect. This may partly underlie previous assumptions that sub-lethal parasites do not have significant effects on host health. We recommend future studies adopt energetic condition as the framework for assessing parasite effects on wildlife health and provide guidelines for the selection of research protocols, health proxies, and relating infection to fitness.
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Affiliation(s)
- Kyle M Shanebeck
- Department of Biological Sciences, University of Alberta, 11455 Saskatchewan Drive, Edmonton, Alberta, Canada
| | - Anne A Besson
- Department of Zoology, University of Otago, 340 Great King Street, Dunedin, 9016, New Zealand
| | - Clement Lagrue
- Department of Biological Sciences, University of Alberta, 11455 Saskatchewan Drive, Edmonton, Alberta, Canada.,Department of Zoology, University of Otago, 340 Great King Street, Dunedin, 9016, New Zealand.,Department of Conservation, 265 Princes Street, Dunedin, 9016, New Zealand
| | - Stephanie J Green
- Department of Biological Sciences, University of Alberta, 11455 Saskatchewan Drive, Edmonton, Alberta, Canada
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Ketz AC, Robinson SJ, Johnson CJ, Samuel MD. Pathogen‐mediated selection and management implications for white‐tailed deer exposed to chronic wasting disease. J Appl Ecol 2022. [DOI: 10.1111/1365-2664.14109] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Affiliation(s)
- Alison C. Ketz
- Wisconsin Cooperative Research Unit Department of Forest and Wildlife Ecology University of Wisconsin Madison WI USA
| | - Stacie J. Robinson
- NOAA Hawaiian Monk Seal Research Program Pacific Islands Fisheries Science Center Honolulu HI USA
| | - Chad J. Johnson
- Medical Microbiology and Immunology University of Wisconsin Madison WI USA
| | - Michael D. Samuel
- Department of Forest and Wildlife Ecology University of Wisconsin Madison WI USA
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Jiao F, Guo R, Beckmann JS, Yan Z, Yang Y, Hu J, Wang X, Xie S. Great future or greedy venture: Precision medicine needs philosophy. Health Sci Rep 2021; 4:e376. [PMID: 34541334 PMCID: PMC8439431 DOI: 10.1002/hsr2.376] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2021] [Revised: 08/06/2021] [Accepted: 08/16/2021] [Indexed: 11/07/2022] Open
Abstract
INTRODUCTION Over the past decade, we have witnessed the initiation and implementation of precision medicine (PM), a discipline that promises to individualize and personalize medical management and treatment, rendering them ultimately more precise and effective. Despite of the continuing advances and numerous clinical applications, the potential of PM remains highly controversial, sparking heated debates about its future. METHOD The present article reviews the philosophical issues and practical challenges that are critical to the feasibility and implementation of PM. OUTCOME The explanation and argument about the relations between PM and computability, uncertainty as well as complexity, show that key foundational assumptions of PM might not be fully validated. CONCLUSION The present analysis suggests that our current understanding of PM is probably oversimplified and too superficial. More efforts are needed to realize the hope that PM has elicited, rather than make the term just as a hype.
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Affiliation(s)
- Fei Jiao
- Department of Biochemistry and Molecular BiologyBinzhou Medical UniversityYantaiChina
| | - Ruoyu Guo
- Department of Biochemistry and Molecular BiologyBinzhou Medical UniversityYantaiChina
| | | | - Zhonghai Yan
- Department of Medicine, College of Physicians and SurgeonsColumbia UniversityNew YorkNew YorkUSA
| | - Yun Yang
- Department of Biochemistry and Molecular BiologyBinzhou Medical UniversityYantaiChina
| | - Jinxia Hu
- Department of Biochemistry and Molecular BiologyBinzhou Medical UniversityYantaiChina
| | - Xin Wang
- Department of Clinical Laboratory & Center of Health Service Training970 Hospital of the PLA Joint Logistic Support ForceYantaiChina
| | - Shuyang Xie
- Department of Biochemistry and Molecular BiologyBinzhou Medical UniversityYantaiChina
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Gibb R, Albery GF, Becker DJ, Brierley L, Connor R, Dallas TA, Eskew EA, Farrell MJ, Rasmussen AL, Ryan SJ, Sweeny A, Carlson CJ, Poisot T. Data Proliferation, Reconciliation, and Synthesis in Viral Ecology. Bioscience 2021. [DOI: 10.1093/biosci/biab080] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
Abstract
The fields of viral ecology and evolution are rapidly expanding, motivated in part by concerns around emerging zoonoses. One consequence is the proliferation of host–virus association data, which underpin viral macroecology and zoonotic risk prediction but remain fragmented across numerous data portals. In the present article, we propose that synthesis of host–virus data is a central challenge to characterize the global virome and develop foundational theory in viral ecology. To illustrate this, we build an open database of mammal host–virus associations that reconciles four published data sets. We show that this offers a substantially richer view of the known virome than any individual source data set but also that databases such as these risk becoming out of date as viral discovery accelerates. We argue for a shift in practice toward the development, incremental updating, and use of synthetic data sets in viral ecology, to improve replicability and facilitate work to predict the structure and dynamics of the global virome.
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Affiliation(s)
- Rory Gibb
- Centre on Climate Change and Planetary Health, London School of Hygiene and Tropical Medicine, London, England, United Kingdom
- Viral Emergence Research Initiative consortium, a global scientific collaboration to predict which viruses could infect humans, which animals host them, and where they could emerge
| | - Gregory F Albery
- Department of Biology, Georgetown University, Washington, DC, United States
- Viral Emergence Research Initiative consortium, a global scientific collaboration to predict which viruses could infect humans, which animals host them, and where they could emerge
| | - Daniel J Becker
- Department of Biology, University of Oklahoma, Norman Oklahoma, United States
- Viral Emergence Research Initiative consortium, a global scientific collaboration to predict which viruses could infect humans, which animals host them, and where they could emerge
| | - Liam Brierley
- Department of Health Data Science, University of Liverpool, Liverpool, England, United Kingdom
- Viral Emergence Research Initiative consortium, a global scientific collaboration to predict which viruses could infect humans, which animals host them, and where they could emerge
| | - Ryan Connor
- National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland, United States
- Viral Emergence Research Initiative consortium, a global scientific collaboration to predict which viruses could infect humans, which animals host them, and where they could emerge
| | - Tad A Dallas
- Department of Biological Sciences, Louisiana State University, Baton Rouge, Louisiana, United States
- Viral Emergence Research Initiative consortium, a global scientific collaboration to predict which viruses could infect humans, which animals host them, and where they could emerge
| | - Evan A Eskew
- Department of Biology, Pacific Lutheran University, Tacoma, Washington, United States
- Viral Emergence Research Initiative consortium, a global scientific collaboration to predict which viruses could infect humans, which animals host them, and where they could emerge
| | - Maxwell J Farrell
- Department of Ecology and Evolutionary Biology, University of Toronto, Toronto, Ontario, Canada
- Viral Emergence Research Initiative consortium, a global scientific collaboration to predict which viruses could infect humans, which animals host them, and where they could emerge
| | - Angela L Rasmussen
- Vaccine Infectious Disease Organization and International Vaccine Centre, University of Saskatchewan, Saskatchewan, Saskatoon, Canada
- Viral Emergence Research Initiative consortium, a global scientific collaboration to predict which viruses could infect humans, which animals host them, and where they could emerge
| | - Sadie J Ryan
- Quantitative Disease Ecology and Conservation Lab, Department of Geography and with the Emerging Pathogens Institute, University of Florida, Gainesville, Florida, United States, and with the College of Life Sciences, University of KwaZulu Natal, Durban, South Africa
- Viral Emergence Research Initiative consortium, a global scientific collaboration to predict which viruses could infect humans, which animals host them, and where they could emerge
| | - Amy Sweeny
- Institute of Evolutionary Biology, University of Edinburgh, in Edinburgh, Scotland, United Kingdom
- Viral Emergence Research Initiative consortium, a global scientific collaboration to predict which viruses could infect humans, which animals host them, and where they could emerge
| | - Colin J Carlson
- Global Health Science and Security, Georgetown University Medical Center, Georgetown University, Washington, DC, United States
- Viral Emergence Research Initiative consortium, a global scientific collaboration to predict which viruses could infect humans, which animals host them, and where they could emerge
| | - Timothée Poisot
- Département de Sciences Biologiques, Université de Montréal, and with the Québec Centre for Biodiversity Sciences, both in Montréal, Québec, Canada
- Viral Emergence Research Initiative consortium, a global scientific collaboration to predict which viruses could infect humans, which animals host them, and where they could emerge
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Jesudoss Chelladurai JRJ, Brewer MT. Global prevalence of Mesocestoides infections in animals - A systematic review and meta-analysis. Vet Parasitol 2021; 298:109537. [PMID: 34418810 DOI: 10.1016/j.vetpar.2021.109537] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2021] [Revised: 07/27/2021] [Accepted: 07/28/2021] [Indexed: 11/16/2022]
Abstract
Mesocestoides spp. are zoonotic cestodes found as adults in carnivorous domestic and wild definitive hosts and as metacestodes in several taxa of intermediate hosts. Although several regional studies record its occurrence in different host populations, the global prevalence and patterns of occurrence of Mesocestoides spp. are not fully understood. The objective of this study was to conduct a systematic review and meta-analysis of published literature to estimate the global prevalence of Mesocestoides spp. in major definitive and intermediate host taxa. Records published in English were collected from NCBI PubMed, Science Direct, Web of Science and Google Scholar databases, with 364 papers being included in the meta-analysis. The overall pooled prevalence estimates show that 21.72 % (95 % CI: 18.49-25.14) of terrestrial carnivore definitive hosts and 7.09 % (95 % CI: 5.79-8.51) of intermediate hosts are infected. Among definitive hosts, opossums and foxes were most commonly infected with pooled global prevalence of 48.16 % (95 % CI: 14.62 - 82.69) and 35.97 % (295 % CI: 9.54 - 42.66) respectively. Pooled global prevalence in domestic dogs and cats were 7.97 % (95 % CI: 5.67 - 10.63) and 8.32 % (95 % CI: 3.78 - 14.41) respectively. Among intermediate hosts, birds and snakes were most commonly infected with pooled global prevalence of 16.19 % (95 %CI: 5.9 - 30.31) and 15.74 % (95 % CI: 10.59 - 21.69) respectively. Our analysis demonstrates that prevalence of Mesocestoides spp. is variable across the world. The sylvatic cycle in wild hosts is likely to be more important than the domestic cycle for the maintenance of Mesocestoides spp. globally. Currently available genetic data at the mitochondrial COI locus was also phylogenetically analyzed. The genetic data supports the taxonomic distinctiveness of only a few of the numerous morphologically described Mesocestoides spp.
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Affiliation(s)
- Jeba R J Jesudoss Chelladurai
- Department of Diagnostic Medicine/Pathobiology, College of Veterinary Medicine, Kansas State University, United States.
| | - Matthew T Brewer
- Department of Veterinary Pathology, College of Veterinary Medicine, Iowa State University, United States
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Tieri EE, Saletti MA, D'Angelo AR, Parisciani G, Pelini S, Cocco A, Di Teodoro G, Di Censo E, D'Alterio N, Latrofa MS, Otranto D, Pascucci I. Angiostrongylus vasorum in foxes ( Vulpes vulpes) and wolves ( Canis lupus italicus) from Abruzzo region, Italy. Int J Parasitol Parasites Wildl 2021; 15:184-194. [PMID: 34136344 PMCID: PMC8182381 DOI: 10.1016/j.ijppaw.2021.05.003] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/10/2021] [Revised: 05/11/2021] [Accepted: 05/11/2021] [Indexed: 11/20/2022]
Abstract
In Europe wildlife animals such as the red fox (Vulpes vulpes) are considered the main reservoir for Angiostrongylus vasorum as well as a potential threat for domestic dog infection. Though this parasite is endemic in fox populations, data on A. vasorum infection in wolves (Canis lupus italicus) are still scant, having only recently been described in Northwestern Spain, in Italy, in Croatia and in Slovakia. Based on the rising number of cases of canine lungworm infection in Central Italy (Abruzzo region), the aim of the present study was to investigate the infection by A. vasorum in fox and wolf populations sharing the same geographical area of dogs. From October 2008 to November 2019, A. vasorum specimens were collected, through routine post-mortem examination, from 56 carcasses (44 foxes and 12 wolves). Adult parasites were searched for in the right side of the heart and in pulmonary artery of all carcasses. First stage of larvae (L1) was searched in faeces using the Baermann technique and in lungs by tissue impressions. Overall, 230 adult specimens were collected and identified on a morphological basis. To confirm the morphological identification, 4 adult specimens (n = 3 from fox, n = 1 from wolf) were molecularly identified as A. vasorum by amplification of partial fragment of nuclear 18S rRNA (~1700 bp) genes. The anatomo-pathological and parasitological examinations indicated the presence of A. vasorum in 33 foxes (75%) and in 8 wolves (66.7%). The level of prevalence of infested wolves was higher than the previous one reported in other European countries. Interestingly, the prevalence of infection in foxes herein recorded was higher than that described in dogs (8.9%) living in the same geographical area. This result may confirm the hypothesis that the spread of canine angiostrongylosis is linked to fox populations infection.
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Affiliation(s)
- Elga Ersilia Tieri
- Istituto Zooprofilattico Sperimentale dell’Abruzzo e del Molise “G. Caporale” (IZSAM), Campo Boario, 64100, Teramo, Italy
- Corresponding author.
| | - Maria Antonietta Saletti
- Istituto Zooprofilattico Sperimentale dell’Abruzzo e del Molise “G. Caporale” (IZSAM), Campo Boario, 64100, Teramo, Italy
| | - Anna Rita D'Angelo
- Istituto Zooprofilattico Sperimentale dell’Abruzzo e del Molise “G. Caporale” (IZSAM), Campo Boario, 64100, Teramo, Italy
| | - Gabriella Parisciani
- Istituto Zooprofilattico Sperimentale dell’Abruzzo e del Molise “G. Caporale” (IZSAM), Campo Boario, 64100, Teramo, Italy
| | - Sandro Pelini
- Istituto Zooprofilattico Sperimentale dell’Abruzzo e del Molise “G. Caporale” (IZSAM), Campo Boario, 64100, Teramo, Italy
| | - Antonio Cocco
- Istituto Zooprofilattico Sperimentale dell’Abruzzo e del Molise “G. Caporale” (IZSAM), Campo Boario, 64100, Teramo, Italy
| | - Giovanni Di Teodoro
- Istituto Zooprofilattico Sperimentale dell’Abruzzo e del Molise “G. Caporale” (IZSAM), Campo Boario, 64100, Teramo, Italy
| | - Erica Di Censo
- Azienda Sanitaria Locale di Pescara, via Renato Paolini 47, 65124, Pescara, Italy
| | - Nicola D'Alterio
- Istituto Zooprofilattico Sperimentale dell’Abruzzo e del Molise “G. Caporale” (IZSAM), Campo Boario, 64100, Teramo, Italy
| | - Maria Stefania Latrofa
- Department of Veterinary Medicine, University of Bari “Aldo Moro”, Strada Provinciale per Casamassina Km 3, 70010, Valenzano, BA), Italy
| | - Domenico Otranto
- Department of Veterinary Medicine, University of Bari “Aldo Moro”, Strada Provinciale per Casamassina Km 3, 70010, Valenzano, BA), Italy
- Faculty of Veterinary Sciences, Bu-Ali Sina University, District 2, Hamedan, Iran
| | - Ilaria Pascucci
- Istituto Zooprofilattico Sperimentale dell’Abruzzo e del Molise “G. Caporale” (IZSAM), Campo Boario, 64100, Teramo, Italy
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11
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Inácio da Silva LM, Dezordi FZ, Paiva MHS, Wallau GL. Systematic Review of Wolbachia Symbiont Detection in Mosquitoes: An Entangled Topic about Methodological Power and True Symbiosis. Pathogens 2021; 10:39. [PMID: 33419044 PMCID: PMC7825316 DOI: 10.3390/pathogens10010039] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2020] [Revised: 12/29/2020] [Accepted: 01/04/2021] [Indexed: 12/14/2022] Open
Abstract
Wolbachia is an endosymbiotic bacterium that naturally infects several arthropods and nematode species. Wolbachia gained particular attention due to its impact on their host fitness and the capacity of specific Wolbachia strains in reducing pathogen vector and agricultural pest populations and pathogens transmission. Despite the success of mosquito/pathogen control programs using Wolbachia-infected mosquito release, little is known about the abundance and distribution of Wolbachia in most mosquito species, a crucial knowledge for planning and deployment of mosquito control programs and that can further improve our basic biology understanding of Wolbachia and host relationships. In this systematic review, Wolbachia was detected in only 30% of the mosquito species investigated. Fourteen percent of the species were considered positive by some studies and negative by others in different geographical regions, suggesting a variable infection rate and/or limitations of the Wolbachia detection methods employed. Eighty-three percent of the studies screened Wolbachia with only one technique. Our findings highlight that the assessment of Wolbachia using a single approach limited the inference of true Wolbachia infection in most of the studied species and that researchers should carefully choose complementary methodologies and consider different Wolbachia-mosquito population dynamics that may be a source of bias to ascertain the correct infectious status of the host species.
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Affiliation(s)
- Luísa Maria Inácio da Silva
- Departamento de Entomologia, Instituto Aggeu Magalhães (IAM), Fundação Oswaldo Cruz (FIOCRUZ), Av. Professor Moraes Rego, s/n, Campus da UFPE, Cidade Universitária, Recife 50740-465, Brazil; (L.M.I.d.S.); (F.Z.D.)
| | - Filipe Zimmer Dezordi
- Departamento de Entomologia, Instituto Aggeu Magalhães (IAM), Fundação Oswaldo Cruz (FIOCRUZ), Av. Professor Moraes Rego, s/n, Campus da UFPE, Cidade Universitária, Recife 50740-465, Brazil; (L.M.I.d.S.); (F.Z.D.)
- Núcleo de Bioinformática (NBI), Instituto Aggeu Magalhães (IAM), Fundação Oswaldo Cruz (FIOCRUZ), Recife 50670-420, Brazil
| | - Marcelo Henrique Santos Paiva
- Departamento de Entomologia, Instituto Aggeu Magalhães (IAM), Fundação Oswaldo Cruz (FIOCRUZ), Av. Professor Moraes Rego, s/n, Campus da UFPE, Cidade Universitária, Recife 50740-465, Brazil; (L.M.I.d.S.); (F.Z.D.)
- Núcleo de Ciências da Vida, Universidade Federal de Pernambuco (UFPE), Centro Acadêmico do Agreste-Rodovia BR-104, km 59-Nova Caruaru, Caruaru 55002-970, Brazil
| | - Gabriel Luz Wallau
- Departamento de Entomologia, Instituto Aggeu Magalhães (IAM), Fundação Oswaldo Cruz (FIOCRUZ), Av. Professor Moraes Rego, s/n, Campus da UFPE, Cidade Universitária, Recife 50740-465, Brazil; (L.M.I.d.S.); (F.Z.D.)
- Núcleo de Bioinformática (NBI), Instituto Aggeu Magalhães (IAM), Fundação Oswaldo Cruz (FIOCRUZ), Recife 50670-420, Brazil
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12
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Paterson JT, Butler C, Garrott R, Proffitt K. How sure are you? A web-based application to confront imperfect detection of respiratory pathogens in bighorn sheep. PLoS One 2020; 15:e0237309. [PMID: 32898140 PMCID: PMC7478830 DOI: 10.1371/journal.pone.0237309] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2019] [Accepted: 07/26/2020] [Indexed: 11/18/2022] Open
Abstract
The relationships between host-pathogen population dynamics in wildlife are poorly understood. An impediment to progress in understanding these relationships is imperfect detection of diagnostic tests used to detect pathogens. If ignored, imperfect detection precludes accurate assessment of pathogen presence and prevalence, foundational parameters for deciphering host-pathogen dynamics and disease etiology. Respiratory disease in bighorn sheep (Ovis canadensis) is a significant impediment to their conservation and restoration, and effective management requires a better understanding of the structure of the pathogen communities. Our primary objective was to develop an easy-to-use and accessible web-based Shiny application that estimates the probability (with associated uncertainty) that a respiratory pathogen is present in a herd and its prevalence given imperfect detection. Our application combines the best-available information on the probabilities of detection for various respiratory pathogen diagnostic protocols with a hierarchical Bayesian model of pathogen prevalence. We demonstrated this application using four examples of diagnostic tests from three herds of bighorn sheep in Montana. For instance, one population with no detections of Mycoplasma ovipneumoniae (PCR assay) still had an 6% probability of the pathogen being present in the herd. Similarly, the apparent prevalence (0.32) of M. ovipneumoniae in another herd was a substantial underestimate of estimated true prevalence (0.46: 95% CI = [0.25, 0.71]). The negative bias of naïve prevalence increased as the probability of detection of testing protocols worsened such that the apparent prevalence of Mannheimia haemolytica (culture assay) in a herd (0.24) was less than one third that of estimated true prevalence (0.78: 95% CI = [0.43, 0.99]). We found a small difference in the estimates of the probability that Mannheimia spp. (culture assay) was present in one herd between the binomial sampling approach (0.24) and the hypergeometric approach (0.22). Ignoring the implications of imperfect detection and sampling variation for assessing pathogen communities in bighorn sheep can result in spurious inference on pathogen presence and prevalence, and potentially poorly informed management decisions. Our Shiny application makes the rigorous assessment of pathogen presence, prevalence and uncertainty straightforward, and we suggest it should be incorporated into a new paradigm of disease monitoring.
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Affiliation(s)
- J. Terrill Paterson
- Department of Ecology, Montana State University, Bozeman, MT, United States of America
- * E-mail:
| | - Carson Butler
- Fish and Wildlife Branch, Grand Teton National Park, Moose, WY, United States of America
| | - Robert Garrott
- Department of Ecology, Montana State University, Bozeman, MT, United States of America
| | - Kelly Proffitt
- Montana Fish Wildlife and Parks, Bozeman, MT, United States of America
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13
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Abstract
The last two decades have seen the rise of viromics, the study of viral communities through the detection and characterization of virus genome sequences. Here we systematically review and summarize the scope and limitations of our current understanding of avian viromes, in both domesticated and wild-bird populations. We compare this viromic work to the broader literature on avian prokaryotic microbiomes, and highlight the growing importance of structured sampling and experimental design for testing explanatory hypotheses. We provide a number of recommendations for sample collection and preliminary data analysis to guide the development of avian viromics. Avian viromes have the potential to inform disease surveillance in poultry and improve our understanding of the risk of zoonotic viruses to human health.
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Affiliation(s)
| | - Oliver G Pybus
- Department of Zoology, University of Oxford, UK
- Department of Pathobiology and Population Sciences, Royal Veterinary College London, UK
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14
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Albery GF, Becker DJ, Kenyon F, Nussey DH, Pemberton JM. The Fine-Scale Landscape of Immunity and Parasitism in a Wild Ungulate Population. Integr Comp Biol 2020; 59:1165-1175. [PMID: 30942858 DOI: 10.1093/icb/icz016] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023] Open
Abstract
Spatial heterogeneity in susceptibility and exposure to parasites is a common source of confounding variation in disease ecology studies. However, it is not known whether spatial autocorrelation acts on immunity at small scales, within wild animal populations, and whether this predicts spatial patterns in infection. Here we used a well-mixed wild population of individually recognized red deer (Cervus elaphus) inhabiting a heterogeneous landscape to investigate fine-scale spatial patterns of immunity and parasitism. We noninvasively collected 842 fecal samples from 141 females with known ranging behavior over 2 years. We quantified total and helminth-specific mucosal antibodies and counted propagules of three gastrointestinal helminth taxa. These data were analyzed with linear mixed models using the Integrated Nested Laplace Approximation, using a Stochastic Partial Differentiation Equation approach to control for and quantify spatial autocorrelation. We also investigated whether spatial patterns of immunity and parasitism changed seasonally. We discovered substantial spatial heterogeneity in general and helminth-specific antibody levels and parasitism with two helminth taxa, all of which exhibited contrasting seasonal variation in their spatial patterns. Notably, Fasciola hepatica intensity appeared to be strongly influenced by the presence of wet grazing areas, and antibody hotspots did not correlate with distributions of any parasites. Our results suggest that spatial heterogeneity may be an important factor affecting immunity and parasitism in a wide range of study systems. We discuss these findings with regards to the design of sampling regimes and public health interventions, and suggest that disease ecology studies investigate spatial heterogeneity more regularly to enhance their results, even when examining small geographic areas.
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Affiliation(s)
- Gregory F Albery
- Institute of Evolutionary Biology, School of Biological Sciences, The University of Edinburgh, Edinburgh, EH9 3FL, UK
| | - Daniel J Becker
- Department of Biology, Indiana University, Bloomington, IN 47405, USA
| | - Fiona Kenyon
- Pentlands Science Park, Moredun Research Institute, Bush Loan, Midlothian EH26 0PZ, UK
| | - Daniel H Nussey
- Institute of Evolutionary Biology, School of Biological Sciences, The University of Edinburgh, Edinburgh, EH9 3FL, UK
| | - Josephine M Pemberton
- Institute of Evolutionary Biology, School of Biological Sciences, The University of Edinburgh, Edinburgh, EH9 3FL, UK
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15
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Ketz AC, Johnson TL, Hooten MB, Hobbs NT. A hierarchical Bayesian approach for handling missing classification data. Ecol Evol 2019; 9:3130-3140. [PMID: 30962886 PMCID: PMC6434567 DOI: 10.1002/ece3.4927] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2018] [Revised: 11/21/2018] [Accepted: 01/02/2019] [Indexed: 11/29/2022] Open
Abstract
Ecologists use classifications of individuals in categories to understand composition of populations and communities. These categories might be defined by demographics, functional traits, or species. Assignment of categories is often imperfect, but frequently treated as observations without error. When individuals are observed but not classified, these "partial" observations must be modified to include the missing data mechanism to avoid spurious inference.We developed two hierarchical Bayesian models to overcome the assumption of perfect assignment to mutually exclusive categories in the multinomial distribution of categorical counts, when classifications are missing. These models incorporate auxiliary information to adjust the posterior distributions of the proportions of membership in categories. In one model, we use an empirical Bayes approach, where a subset of data from one year serves as a prior for the missing data the next. In the other approach, we use a small random sample of data within a year to inform the distribution of the missing data.We performed a simulation to show the bias that occurs when partial observations were ignored and demonstrated the altered inference for the estimation of demographic ratios. We applied our models to demographic classifications of elk (Cervus elaphus nelsoni) to demonstrate improved inference for the proportions of sex and stage classes.We developed multiple modeling approaches using a generalizable nested multinomial structure to account for partially observed data that were missing not at random for classification counts. Accounting for classification uncertainty is important to accurately understand the composition of populations and communities in ecological studies.
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Affiliation(s)
- Alison C. Ketz
- Natural Resource Ecology LabDepartment of Ecosystem Science and Sustainability, and Graduate Degree Program in EcologyColorado State UniversityFort CollinsColorado
| | | | - Mevin B. Hooten
- U.S. Geological SurveyColorado Cooperative Fish and Wildlife Research UnitColorado State UniversityFort CollinsColorado
- Department of Fish, Wildlife and Conservation BiologyColorado State UniversityFort CollinsColorado
- Department of StatisticsColorado State UniversityFort CollinsColorado
| | - N. Thompson Hobbs
- Natural Resource Ecology LabDepartment of Ecosystem Science and Sustainability, and Graduate Degree Program in EcologyColorado State UniversityFort CollinsColorado
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Benhaiem S, Marescot L, Hofer H, East ML, Lebreton JD, Kramer-Schadt S, Gimenez O. Robustness of Eco-Epidemiological Capture-Recapture Parameter Estimates to Variation in Infection State Uncertainty. Front Vet Sci 2018; 5:197. [PMID: 30211175 PMCID: PMC6121098 DOI: 10.3389/fvets.2018.00197] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2018] [Accepted: 07/27/2018] [Indexed: 12/02/2022] Open
Abstract
Estimating eco-epidemiological parameters in free-ranging populations can be challenging. As known individuals may be undetected during a field session, or their health status uncertain, the collected data are typically "imperfect". Multi-event capture-mark-recapture (MECMR) models constitute a substantial methodological advance by accounting for such imperfect data. In these models, animals can be "undetected" or "detected" at each time step. Detected animals can be assigned an infection state, such as "susceptible" (S), "infected" (I), or "recovered" (R), or an "unknown" (U) state, when for instance no biological sample could be collected. There may be heterogeneity in the assignment of infection states, depending on the manifestation of the disease in the host or the diagnostic method. For example, if obtaining the samples needed to prove viral infection in a detected animal is difficult, this can result in a low chance of assigning the I state. Currently, it is unknown how much uncertainty MECMR models can tolerate to provide reliable estimates of eco-epidemiological parameters and whether these parameters are sensitive to heterogeneity in the assignment of infection states. We used simulations to assess how estimates of the survival probability of individuals in different infection states and the probabilities of infection and recovery responded to (1) increasing infection state uncertainty (i.e., the proportion of U) from 20 to 90%, and (2) heterogeneity in the probability of assigning infection states. We simulated data, mimicking a highly virulent disease, and used SIR-MECMR models to quantify bias and precision. For most parameter estimates, bias increased and precision decreased gradually with state uncertainty. The probabilities of survival of I and R individuals and of detection of R individuals were very robust to increasing state uncertainty. In contrast, the probabilities of survival and detection of S individuals, and the infection and recovery probabilities showed high biases and low precisions when state uncertainty was >50%, particularly when the assignment of the S state was reduced. Considering this specific disease scenario, SIR-MECMR models are globally robust to state uncertainty and heterogeneity in state assignment, but the previously mentioned parameter estimates should be carefully interpreted if the proportion of U is high.
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Affiliation(s)
- Sarah Benhaiem
- Department of Ecological Dynamics, Leibniz Institute for Zoo and Wildlife Research, Berlin, Germany
| | - Lucile Marescot
- Department of Ecological Dynamics, Leibniz Institute for Zoo and Wildlife Research, Berlin, Germany
- CEFE, CNRS, University Montpellier, University Paul Valéry Montpellier 3, EPHE, IRD, Montpellier, France
| | - Heribert Hofer
- Department of Ecological Dynamics, Leibniz Institute for Zoo and Wildlife Research, Berlin, Germany
- Department of Veterinary Medicine, Freie Universität Berlin, Berlin, Germany
- Department of Biology, Chemistry, and Pharmacy, Berlin, Germany
| | - Marion L. East
- Department of Ecological Dynamics, Leibniz Institute for Zoo and Wildlife Research, Berlin, Germany
| | - Jean-Dominique Lebreton
- CEFE, CNRS, University Montpellier, University Paul Valéry Montpellier 3, EPHE, IRD, Montpellier, France
| | - Stephanie Kramer-Schadt
- Department of Ecological Dynamics, Leibniz Institute for Zoo and Wildlife Research, Berlin, Germany
- Department of Ecology, Technische Universität Berlin, Berlin, Germany
| | - Olivier Gimenez
- CEFE, CNRS, University Montpellier, University Paul Valéry Montpellier 3, EPHE, IRD, Montpellier, France
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