1
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Hallman TA, Robinson WD. Supplemental structured surveys and pre-existing detection models improve fine-scale density and population estimation with opportunistic community science data. Sci Rep 2024; 14:11070. [PMID: 38745056 PMCID: PMC11094051 DOI: 10.1038/s41598-024-61582-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2023] [Accepted: 05/07/2024] [Indexed: 05/16/2024] Open
Abstract
Density and population estimates aid in conservation and stakeholder communication. While free and broadly available community science data can effectively inform species distribution models, they often lack the information necessary to estimate imperfect detection and area sampled, thus limiting their use in fine-scale density modeling. We used structured distance-sampling surveys to model detection probability and calculate survey-specific detection offsets in community science models. We estimated density and population for 16 songbird species under three frameworks: (1) a fixed framework that assumes perfect detection within a specified survey radius, (2) an independent framework that calculates offsets from an independent source, and (3) a calibration framework that calculates offsets from supplemental surveys. Within the calibration framework, we examined the effects of calibration dataset size and data pooling. Estimates of density and population size were consistently biased low in the fixed framework. The independent and calibration frameworks produced reliable estimates for some species, but biased estimates for others, indicating discrepancies in detection probability between structured and community science surveys. The calibration framework produced reliable population estimates with as few as 10 calibration surveys with positive detections. Data pooling dramatically decreased bias. This study provides conservationists and managers with a cost-effective method of estimating density and population.
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Affiliation(s)
- Tyler A Hallman
- Oak Creek Lab of Biology, Department of Fisheries, Wildlife, and Conservation Sciences, Oregon State University, Corvallis, OR, USA.
- Swiss Ornithological Institute, Seerose 1, 6204, Sempach, Switzerland.
- Department of Biology and Chemistry, Queens University of Charlotte, Charlotte, NC, USA.
- School of Environmental and Natural Sciences, Bangor University, Bangor, LL57 2DG, UK.
| | - W Douglas Robinson
- Oak Creek Lab of Biology, Department of Fisheries, Wildlife, and Conservation Sciences, Oregon State University, Corvallis, OR, USA
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2
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Chadwick FJ, Haydon DT, Husmeier D, Ovaskainen O, Matthiopoulos J. LIES of omission: complex observation processes in ecology. Trends Ecol Evol 2024; 39:368-380. [PMID: 37949794 DOI: 10.1016/j.tree.2023.10.009] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2023] [Revised: 10/13/2023] [Accepted: 10/16/2023] [Indexed: 11/12/2023]
Abstract
Advances in statistics mean that it is now possible to tackle increasingly sophisticated observation processes. The intricacies and ambitious scale of modern data collection techniques mean that this is now essential. Methodological research to make inference about the biological process while accounting for the observation process has expanded dramatically, but solutions are often presented in field-specific terms, limiting our ability to identify commonalities between methods. We suggest a typology of observation processes that could improve translation between fields and aid methodological synthesis. We propose the LIES framework (defining observation processes in terms of issues of Latency, Identifiability, Effort and Scale) and illustrate its use with both simple examples and more complex case studies.
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Affiliation(s)
- Fergus J Chadwick
- School of Biodiversity, One Health and Veterinary Medicine, University of Glasgow, Glasgow, G12 8QQ, UK; Centre for Research Into Ecological and Environmental Monitoring, School of Mathematics and Statistics, University of St Andrews, St. Andrews, Scotland, UK.
| | - Daniel T Haydon
- School of Biodiversity, One Health and Veterinary Medicine, University of Glasgow, Glasgow, G12 8QQ, UK
| | - Dirk Husmeier
- School of Mathematics and Statistics, University of Glasgow, Glasgow, G12 8TA, UK
| | - Otso Ovaskainen
- Department of Biological and Environmental Science, P.O. Box 35 FI-40014, University of Jyväskylä, Jyväskylä, Finland
| | - Jason Matthiopoulos
- School of Biodiversity, One Health and Veterinary Medicine, University of Glasgow, Glasgow, G12 8QQ, UK
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3
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Adjei KP, Finstad AG, Koch W, O'Hara RB. Modelling heterogeneity in the classification process in multi-species distribution models can improve predictive performance. Ecol Evol 2024; 14:e11092. [PMID: 38455149 PMCID: PMC10918728 DOI: 10.1002/ece3.11092] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/2023] [Revised: 02/12/2024] [Accepted: 02/18/2024] [Indexed: 03/09/2024] Open
Abstract
Species distribution models and maps from large-scale biodiversity data are necessary for conservation management. One current issue is that biodiversity data are prone to taxonomic misclassifications. Methods to account for these misclassifications in multi-species distribution models have assumed that the classification probabilities are constant throughout the study. In reality, classification probabilities are likely to vary with several covariates. Failure to account for such heterogeneity can lead to biased prediction of species distributions. Here, we present a general multi-species distribution model that accounts for heterogeneity in the classification process. The proposed model assumes a multinomial generalised linear model for the classification confusion matrix. We compare the performance of the heterogeneous classification model to that of the homogeneous classification model by assessing how well they estimate the parameters in the model and their predictive performance on hold-out samples. We applied the model to gull data from Norway, Denmark and Finland, obtained from the Global Biodiversity Information Facility. Our simulation study showed that accounting for heterogeneity in the classification process increased the precision of true species' identity predictions by 30% and accuracy and recall by 6%. Since all the models in this study accounted for misclassification of some sort, there was no significant effect of accounting for heterogeneity in the classification process on the inference about the ecological process. Applying the model framework to the gull dataset did not improve the predictive performance between the homogeneous and heterogeneous models (with parametric distributions) due to the smaller misclassified sample sizes. However, when machine learning predictive scores were used as weights to inform the species distribution models about the classification process, the precision increased by 70%. We recommend multiple multinomial regression to be used to model the variation in the classification process when the data contains relatively larger misclassified samples. Machine learning prediction scores should be used when the data contains relatively smaller misclassified samples.
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Affiliation(s)
- Kwaku Peprah Adjei
- Department of Mathematical SciencesNorwegian University of Science and TechnologyTrondheimNorway
- Center for Biodiversity DynamicsNorwegian University of Science and TechnologyTrondheimNorway
- Norwegian Institute for Nature ResearchTrondheimNorway
| | - Anders Gravbrøt Finstad
- Center for Biodiversity DynamicsNorwegian University of Science and TechnologyTrondheimNorway
- Department of Natural HistoryNorwegian University of Science and TechnologyTrondheimNorway
| | - Wouter Koch
- Center for Biodiversity DynamicsNorwegian University of Science and TechnologyTrondheimNorway
- Norwegian Biodiversity Information CentreTrondheimNorway
| | - Robert Brian O'Hara
- Department of Mathematical SciencesNorwegian University of Science and TechnologyTrondheimNorway
- Center for Biodiversity DynamicsNorwegian University of Science and TechnologyTrondheimNorway
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4
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Felappi JF, Sommer JH, Falkenberg T, Terlau W, Kötter T. Urban park qualities driving visitors mental well-being and wildlife conservation in a Neotropical megacity. Sci Rep 2024; 14:4856. [PMID: 38418539 PMCID: PMC10902329 DOI: 10.1038/s41598-024-55357-2] [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: 07/27/2023] [Accepted: 02/22/2024] [Indexed: 03/01/2024] Open
Abstract
Green infrastructure has been widely recognized for the benefits to human health and biodiversity conservation. However, knowledge of the qualities and requirements of such spaces and structures for the effective delivery of the range of ecosystem services expected is still limited, as well as the identification of trade-offs between services. In this study, we apply the One Health approach in the context of green spaces to investigate how urban park characteristics affect human mental health and wildlife support outcomes and identify synergies and trade-offs between these dimensions. Here we show that perceived restorativeness of park users varies significantly across sites and is mainly affected by safety and naturalness perceptions. In turn, these perceptions are driven by objective indicators of quality, such as maintenance of facilities and vegetation structure, and subjective estimations of biodiversity levels. The presence of water bodies benefited both mental health and wildlife. However, high tree canopy coverage provided greater restoration potential whereas a certain level of habitat heterogeneity was important to support a wider range of bird species requirements. To reconcile human and wildlife needs in green spaces, cities should strategically implement a heterogeneous green infrastructure network that considers trade-offs and maximizes synergies between these dimensions.
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Affiliation(s)
| | - Jan Henning Sommer
- Center for Development Research, University of Bonn, Genscherallee 3, 53113, Bonn, Germany
| | - Timo Falkenberg
- Center for Development Research, University of Bonn, Genscherallee 3, 53113, Bonn, Germany
- GeoHealth Centre, Institute for Hygiene and Public Health, University of Bonn, Venusberg Campus 1, 53105, Bonn, Germany
| | - Wiltrud Terlau
- International Centre for Sustainable Development, Bonn-Rhein-Sieg University of Applied Sciences, Grantham-Allee 20, 53757, Sankt Augustin, Germany
| | - Theo Kötter
- Urban Planning and Land Management Group, Institute of Geodesy and Geo-Information, University of Bonn, Nussallee 1, 53115, Bonn, Germany
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5
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Godoy IN, Gorleri FC, Cristaldi MA, Leveau LM. Species Richness and Composition of Forest Birds in Urban Parks and Reserves of Buenos Aires City, Argentina. Animals (Basel) 2024; 14:602. [PMID: 38396570 PMCID: PMC10885980 DOI: 10.3390/ani14040602] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/26/2023] [Revised: 01/23/2024] [Accepted: 02/07/2024] [Indexed: 02/25/2024] Open
Abstract
Urbanization is among the main factors of ecosystem transformation and threats to global biodiversity. Urban green spaces provide multiple services, being important for biodiversity and human well-being. However, the relationship between green spaces and forest birds has been scarcely studied in the Global South. In this work, we used citizen science data (eBird) to assess the variation in the species richness and composition of forest birds in two types of public urban green spaces characterized by different vegetation composition and management: parks and reserves. In general, reserves had more native and unmanaged vegetation than parks. We selected parks and reserves located in the coastal area of the Metropolitan Area of Buenos Aires, Argentina. Sampling effort was considered as the number of checklists for each site. The database allowed information to be extracted from 12 sites and 33 species. The most common species were the Green-barred Woodpecker (Colaptes melanochloros), the Narrow-billed Woodcreeper (Lepidocolaptes angustirostris), and the White-crested Tyrannulet (Serpophaga subcristata). Bird species richness was higher in reserves than in parks and was positively related to sampling effort. The forest bird species composition varied according to the type of green area and sampling effort. Species composition showed a significant nestedness, with the least rich sites being a subset of species from the richest sites. Reserves and sites with the highest sampling effort concentrated all species. The results obtained show the importance of urban reserves in the conservation of forest birds.
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Affiliation(s)
- Ianina N Godoy
- Departamento de Ecología, Genética y Evolución, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires-Instituto de Ecología, Genética y Evolución de Buenos Aires, Ciudad Universitaria, Pab 2, Piso 4, Buenos Aires 1426, Argentina
| | - Fabricio C Gorleri
- Laboratorio de Ecología, Comportamiento y Sonidos Naturales, Instituto de Bio y Geociencias del Noroeste Argentino-Consejo Nacional de Investigaciones Científicas y Técnicas, Avenida 9 de Julio 14, Rosario de Lerma 4405, Argentina
| | - Maximiliano A Cristaldi
- Departamento de Ecología, Genética y Evolución, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires-Instituto de Ecología, Genética y Evolución de Buenos Aires, Ciudad Universitaria, Pab 2, Piso 4, Buenos Aires 1426, Argentina
| | - Lucas M Leveau
- Departamento de Ecología, Genética y Evolución, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires-Instituto de Ecología, Genética y Evolución de Buenos Aires, Ciudad Universitaria, Pab 2, Piso 4, Buenos Aires 1426, Argentina
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6
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Ruck A, van der Wal R, S C Hood A, L Mauchline A, G Potts S, F WallisDeVries M, Öckinger E. Farmland biodiversity monitoring through citizen science: A review of existing approaches and future opportunities. AMBIO 2024; 53:257-275. [PMID: 37973702 PMCID: PMC10774504 DOI: 10.1007/s13280-023-01929-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/09/2022] [Revised: 07/08/2023] [Accepted: 08/25/2023] [Indexed: 11/19/2023]
Abstract
Biodiversity monitoring in agricultural landscapes is important for assessing the effects of both land use change and activities that influence farmland biodiversity. Despite a considerable increase in citizen science approaches to biodiversity monitoring in recent decades, their potential in farmland-specific contexts has not been systematically examined. This paper therefore provides a comprehensive review of existing citizen science approaches involving biodiversity monitoring on farmland. Using three complementary methods, we identify a range of programmes at least partially covering farmland. From these, we develop a typology of eight programme types, reflecting distinctions in types of data collected and nature of volunteer involvement, and highlight their respective strengths and limitations. While all eight types can make substantial contributions to farmland biodiversity monitoring, there is considerable scope for their further development-particularly through increased engagement of farmers, for whom receiving feedback on the effects of their own practices could help facilitate adaptive management.
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Affiliation(s)
- Andy Ruck
- Department of Ecology, Swedish University of Agricultural Sciences, Box 7044, 75007, Uppsala, Sweden.
| | - René van der Wal
- Department of Ecology, Swedish University of Agricultural Sciences, Box 7044, 75007, Uppsala, Sweden
| | - Amelia S C Hood
- School of Agriculture, Policy and Development, Centre for Agri-Environmental Research, University of Reading, Reading, RG6 6EU, UK
| | - Alice L Mauchline
- School of Agriculture, Policy and Development, Centre for Agri-Environmental Research, University of Reading, Reading, RG6 6EU, UK
| | - Simon G Potts
- School of Agriculture, Policy and Development, Centre for Agri-Environmental Research, University of Reading, Reading, RG6 6EU, UK
| | - Michiel F WallisDeVries
- De Vlinderstichting/Dutch Butterfly Conservation, P.O. Box 506, 6700AM, Wageningen, The Netherlands
| | - Erik Öckinger
- Department of Ecology, Swedish University of Agricultural Sciences, Box 7044, 75007, Uppsala, Sweden
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7
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Sblendorio JM, Vonhof MJ, Gill SA. Migratory singers dynamically overlap the signal space of a breeding warbler community. Ecol Evol 2024; 14:e11013. [PMID: 38405408 PMCID: PMC10893555 DOI: 10.1002/ece3.11013] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2023] [Revised: 12/09/2023] [Accepted: 12/15/2023] [Indexed: 02/27/2024] Open
Abstract
Migratory species inhabit many communities along their migratory routes. Across taxa, these species repeatedly move into and out of communities, interacting with each other and locally breeding species and competing for resources and niche space. However, their influence is rarely considered in analyses of ecological processes within the communities they temporarily occupy. Here, we explore the impact of migratory species on a breeding community using the framework of acoustic signal space, a limited resource in which sounds of species within communities co-exist. Migrating New World warblers (Parulidae, hereafter referred to as migrant species) often sing during refueling stops in areas and at times during which locally breeding warbler species (hereafter breeding species) are singing to establish territories and attract mates. We used eBird data to determine the co-occurrence of 19 migrant and 11 breeding warbler species across spring migration in SW Michigan, generated a signal space from song recordings of these species, and examined patterns of signaling overlap experienced by breeding species as migrants moved through the community. Migrant species were present for two-thirds of the breeding season of local species, including periods when breeding species established territories and attracted mates. Signaling niche overlap experienced by individual breeding species was idiosyncratic and varied over time, yet niche overlap between migrant and breeding species occurred more commonly than between breeding species or between migrant species. Nevertheless, the proportion of niche overlap between migrant and breeding warblers was similar to overlap among breeding species. Our findings showed that singing by migrant species overlapped the signals of many breeding species, suggesting that migrants could have unexplored impacts on communication in breeding species, potentially affecting song detection and song evolution. Our study contributes to a growing body of research documenting the impacts of migratory species on communities and ecosystems.
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Affiliation(s)
- Joanna M. Sblendorio
- Department of Biological SciencesWestern Michigan UniversityKalamazooMichiganUSA
| | - Maarten J. Vonhof
- Department of Biological SciencesWestern Michigan UniversityKalamazooMichiganUSA
- Institute of the Environment and SustainabilityWestern Michigan UniversityKalamazooMichiganUSA
| | - Sharon A. Gill
- Department of Biological SciencesWestern Michigan UniversityKalamazooMichiganUSA
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8
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Wei J, Xu F, Cole EF, Sheldon BC, de Boer WF, Wielstra B, Fu H, Gong P, Si Y. Spatially heterogeneous shifts in vegetation phenology induced by climate change threaten the integrity of the avian migration network. GLOBAL CHANGE BIOLOGY 2024; 30:e17148. [PMID: 38273513 DOI: 10.1111/gcb.17148] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/20/2023] [Revised: 12/18/2023] [Accepted: 12/21/2023] [Indexed: 01/27/2024]
Abstract
Phenological responses to climate change frequently vary among trophic levels, which can result in increasing asynchrony between the peak energy requirements of consumers and the availability of resources. Migratory birds use multiple habitats with seasonal food resources along migration flyways. Spatially heterogeneous climate change could cause the phenology of food availability along the migration flyway to become desynchronized. Such heterogeneous shifts in food phenology could pose a challenge to migratory birds by reducing their opportunity for food availability along the migration path and consequently influencing their survival and reproduction. We develop a novel graph-based approach to quantify this problem and deploy it to evaluate the condition of the heterogeneous shifts in vegetation phenology for 16 migratory herbivorous waterfowl species in Asia. We show that climate change-induced heterogeneous shifts in vegetation phenology could cause a 12% loss of migration network integrity on average across all study species. Species that winter at relatively lower latitudes are subjected to a higher loss of integrity in their migration network. These findings highlight the susceptibility of migratory species to climate change. Our proposed methodological framework could be applied to migratory species in general to yield an accurate assessment of the exposure under climate change and help to identify actions for biodiversity conservation in the face of climate-related risks.
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Affiliation(s)
- Jie Wei
- Ministry of Education Ecological Field Station for East Asian Migratory Birds, Department of Earth System Science, Tsinghua University, Beijing, China
| | - Fei Xu
- Key Laboratory of the Three Gorges Reservoir Region's Eco-Environment, Ministry of Education, Chongqing University, Chongqing, China
| | - Ella F Cole
- Edward Grey Institute, Department of Biology, University of Oxford, Oxford, UK
| | - Ben C Sheldon
- Edward Grey Institute, Department of Biology, University of Oxford, Oxford, UK
| | - Willem F de Boer
- Wildlife Ecology and Conservation Group, Wageningen University and Research, Wageningen, the Netherlands
| | - Ben Wielstra
- Institute of Biology Leiden, Leiden University, Leiden, the Netherlands
- Naturalis Biodiversity Center, Leiden, the Netherlands
| | - Haohuan Fu
- Ministry of Education Ecological Field Station for East Asian Migratory Birds, Department of Earth System Science, Tsinghua University, Beijing, China
| | - Peng Gong
- Ministry of Education Ecological Field Station for East Asian Migratory Birds, Department of Earth System Science, Tsinghua University, Beijing, China
- Department of Geography, Department of Earth Sciences, Institute for Climate and Carbon Neutrality, The University of Hong Kong, Hong Kong, China
| | - Yali Si
- Ministry of Education Ecological Field Station for East Asian Migratory Birds, Department of Earth System Science, Tsinghua University, Beijing, China
- Institute of Environmental Sciences, Leiden University, Leiden, the Netherlands
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9
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Geng X, Summers J, Chen N. Ecological niche contributes to the persistence of the Western x Glaucous-winged Gull hybrid zone. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.12.14.571742. [PMID: 38168246 PMCID: PMC10760172 DOI: 10.1101/2023.12.14.571742] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/05/2024]
Abstract
Hybrid zones occur in nature when populations with limited reproductive barriers overlap in space. Many hybrid zones persist over time, and different models have been proposed to explain how selection can maintain hybrid zone stability. More empirical studies are needed to elucidate the role of ecological adaptation in maintaining stable hybrid zones. Here, we investigated the role of exogenous factors in maintaining a hybrid zone between western gulls (Larus occidentalis) and glaucous-winged gulls (L. glaucescens). We used ecological niche models (ENMs) and niche similarity tests to quantify and examine the ecological niches of western gulls, glaucous-winged gulls, and their hybrids. We found evidence of niche divergence between all three groups. Our results best support the bounded superiority model, providing further evidence that exogenous selection favoring hybrids may be an important factor in maintaining this stable hybrid zone.
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Affiliation(s)
- Xuewen Geng
- Department of Biology, University of Rochester
| | | | - Nancy Chen
- Department of Biology, University of Rochester
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10
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Zipkin EF, Doser JW, Davis CL, Leuenberger W, Ayebare S, Davis KL. Integrated community models: A framework combining multispecies data sources to estimate the status, trends and dynamics of biodiversity. J Anim Ecol 2023; 92:2248-2262. [PMID: 37880838 DOI: 10.1111/1365-2656.14012] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2023] [Accepted: 09/07/2023] [Indexed: 10/27/2023]
Abstract
Data deficiencies among rare or cryptic species preclude assessment of community-level processes using many existing approaches, limiting our understanding of the trends and stressors for large numbers of species. Yet evaluating the dynamics of whole communities, not just common or charismatic species, is critical to understanding and the responses of biodiversity to ongoing environmental pressures. A recent surge in both public science and government-funded data collection efforts has led to a wealth of biodiversity data. However, these data collection programmes use a wide range of sampling protocols (from unstructured, opportunistic observations of wildlife to well-structured, design-based programmes) and record information at a variety of spatiotemporal scales. As a result, available biodiversity data vary substantially in quantity and information content, which must be carefully reconciled for meaningful ecological analysis. Hierarchical modelling, including single-species integrated models and hierarchical community models, has improved our ability to assess and predict biodiversity trends and processes. Here, we highlight the emerging 'integrated community modelling' framework that combines both data integration and community modelling to improve inferences on species- and community-level dynamics. We illustrate the framework with a series of worked examples. Our three case studies demonstrate how integrated community models can be used to extend the geographic scope when evaluating species distributions and community-level richness patterns; discern population and community trends over time; and estimate demographic rates and population growth for communities of sympatric species. We implemented these worked examples using multiple software methods through the R platform via packages with formula-based interfaces and through development of custom code in JAGS, NIMBLE and Stan. Integrated community models provide an exciting approach to model biological and observational processes for multiple species using multiple data types and sources simultaneously, thus accounting for uncertainty and sampling error within a unified framework. By leveraging the combined benefits of both data integration and community modelling, integrated community models can produce valuable information about both common and rare species as well as community-level dynamics, allowing for holistic evaluation of the effects of global change on biodiversity.
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Affiliation(s)
- Elise F Zipkin
- Department of Integrative Biology; Ecology, Evolutionary Biology, and Behavior Program, Michigan State University, East Lansing, Michigan, USA
| | - Jeffrey W Doser
- Department of Integrative Biology; Ecology, Evolutionary Biology, and Behavior Program, Michigan State University, East Lansing, Michigan, USA
| | - Courtney L Davis
- Department of Integrative Biology; Ecology, Evolutionary Biology, and Behavior Program, Michigan State University, East Lansing, Michigan, USA
- Cornell Lab of Ornithology, Cornell University, Ithaca, New York, USA
| | - Wendy Leuenberger
- Department of Integrative Biology; Ecology, Evolutionary Biology, and Behavior Program, Michigan State University, East Lansing, Michigan, USA
| | - Samuel Ayebare
- Department of Integrative Biology; Ecology, Evolutionary Biology, and Behavior Program, Michigan State University, East Lansing, Michigan, USA
| | - Kayla L Davis
- Department of Integrative Biology; Ecology, Evolutionary Biology, and Behavior Program, Michigan State University, East Lansing, Michigan, USA
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11
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Davis CL, Bai Y, Chen D, Robinson O, Ruiz-Gutierrez V, Gomes CP, Fink D. Deep learning with citizen science data enables estimation of species diversity and composition at continental extents. Ecology 2023; 104:e4175. [PMID: 37781963 DOI: 10.1002/ecy.4175] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 12/13/2022] [Revised: 06/13/2023] [Accepted: 08/25/2023] [Indexed: 10/03/2023]
Abstract
Effective solutions to conserve biodiversity require accurate community- and species-level information at relevant, actionable scales and across entire species' distributions. However, data and methodological constraints have limited our ability to provide such information in robust ways. Herein we employ a Deep-Reasoning Network implementation of the Deep Multivariate Probit Model (DMVP-DRNets), an end-to-end deep neural network framework, to exploit large observational and environmental data sets together and estimate landscape-scale species diversity and composition at continental extents. We present results from a novel year-round analysis of North American avifauna using data from over nine million eBird checklists and 72 environmental covariates. We highlight the utility of our information by identifying critical areas of high species diversity for a single group of conservation concern, the North American wood warblers, while capturing spatiotemporal variation in species' environmental associations and interspecific interactions. In so doing, we demonstrate the type of accurate, high-resolution information on biodiversity that deep learning approaches such as DMVP-DRNets can provide and that is needed to inform ecological research and conservation decision-making at multiple scales.
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Affiliation(s)
- Courtney L Davis
- Cornell Laboratory of Ornithology, Cornell University, Ithaca, New York, USA
| | - Yiwei Bai
- Department of Computer Science, Cornell University, Ithaca, New York, USA
| | - Di Chen
- Department of Computer Science, Cornell University, Ithaca, New York, USA
| | - Orin Robinson
- Cornell Laboratory of Ornithology, Cornell University, Ithaca, New York, USA
| | | | - Carla P Gomes
- Department of Computer Science, Cornell University, Ithaca, New York, USA
| | - Daniel Fink
- Cornell Laboratory of Ornithology, Cornell University, Ithaca, New York, USA
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12
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Cohen JM, Fink D, Zuckerberg B. Spatial and seasonal variation in thermal sensitivity within North American bird species. Proc Biol Sci 2023; 290:20231398. [PMID: 37935364 PMCID: PMC10645114 DOI: 10.1098/rspb.2023.1398] [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: 06/27/2023] [Accepted: 10/09/2023] [Indexed: 11/09/2023] Open
Abstract
Responses of wildlife to climate change are typically quantified at the species level, but physiological evidence suggests significant intraspecific variation in thermal sensitivity given adaptation to local environments and plasticity required to adjust to seasonal environments. Spatial and temporal variation in thermal responses may carry important implications for climate change vulnerability; for instance, sensitivity to extreme weather may increase in specific regions or seasons. Here, we leverage high-resolution observational data from eBird to understand regional and seasonal variation in thermal sensitivity for 21 bird species. Across their ranges, most birds demonstrated regional and seasonal variation in both thermal peak and range, or the temperature and range of temperatures when observations peaked. Some birds demonstrated constant thermal peaks or ranges across their geographical distributions, while others varied according to local and current environmental conditions. Across species, birds typically demonstrated either geographical or seasonal adaptation to climate. Local adaptation and phenotypic plasticity are likely important but neglected aspects of organismal responses to climate change.
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Affiliation(s)
- Jeremy M. Cohen
- Department of Forest and Wildlife Ecology, University of Wisconsin, Madison, WI, 53706, USA
- Department of Ecology and Evolutionary Biology, and
- Center for Biodiversity and Global Change, Yale University, New Haven, CT, 06520, USA
| | - Daniel Fink
- Cornell Lab of Ornithology, Cornell University, Ithaca, NY, 14850, USA
| | - Benjamin Zuckerberg
- Department of Forest and Wildlife Ecology, University of Wisconsin, Madison, WI, 53706, USA
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13
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Medina W, Huang RM, Pimm SL. Region-wide retreats from lower elevations of range-restricted birds across the Northern Andes. CONSERVATION BIOLOGY : THE JOURNAL OF THE SOCIETY FOR CONSERVATION BIOLOGY 2023; 37:e14127. [PMID: 37259622 DOI: 10.1111/cobi.14127] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/20/2022] [Revised: 05/19/2023] [Accepted: 03/10/2023] [Indexed: 06/02/2023]
Abstract
Local studies show upslope shifts in the distribution of tropical birds in response to warming temperatures. Unanswered is whether these upward shifts occur regionally across many species. We considered a nearly 2000-km length of the Northern Andes, where deforestation, temperature, and extreme weather events have increased during the past decades. Range-restricted bird species are particularly vulnerable to such events and occur in exceptionally high numbers in this region. Using abundant crowd-sourced data from the Cornell Lab of Ornithology database, eBird, and the Global Biodiversity Information Facility, we documented distributions of nearly 200 such species. We examined whether species shifted their elevational ranges over time by comparing observed versus expected occurrences below a low elevational threshold and above a high elevational threshold for 2 periods: before and after 2005. We predicted fewer observations at lower elevations (those below the threshold) and more at upper elevations (those above the threshold) after 2005. We also tested for deforestation effects at lower elevations within each species' distribution ranges. We compared relative forest loss with the differences between observed and expected occurrences across the elevational range. Species' retreats from lower elevations were ubiquitous and involved a 23-40% decline in prevalence at the lowest elevations. Increases at higher elevations were not consistent. The retreats occurred across a broad spectrum of species, from predominantly lowland to predominantly highland. Because deforestation showed no relationship with species retreats, we contend that a warming climate is the most parsimonious explanation for such shifts.
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Affiliation(s)
- Wilderson Medina
- Nicholas School of the Environment, Duke University, Durham, North Carolina, USA
| | - Ryan M Huang
- Nicholas School of the Environment, Duke University, Durham, North Carolina, USA
| | - Stuart L Pimm
- Nicholas School of the Environment, Duke University, Durham, North Carolina, USA
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14
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Ostermann‐Miyashita E, Bluhm H, Dobiáš K, Gandl N, Hibler S, Look S, Michler F, Weltgen L, Smaga A, König HJ, Kuemmerle T, Kiffner C. Opportunities and challenges for monitoring a recolonizing large herbivore using citizen science. Ecol Evol 2023; 13:e10484. [PMID: 37664516 PMCID: PMC10474824 DOI: 10.1002/ece3.10484] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2023] [Revised: 07/29/2023] [Accepted: 08/09/2023] [Indexed: 09/05/2023] Open
Abstract
Monitoring is a prerequisite for evidence-based wildlife management and conservation planning, yet conventional monitoring approaches are often ineffective for species occurring at low densities. However, some species such as large mammals are often observed by lay people and this information can be leveraged through citizen science monitoring schemes. To ensure that such wildlife monitoring efforts provide robust inferences, assessing the quantity, quality, and potential biases of citizen science data is crucial. For Eurasian moose (Alces alces), a species currently recolonizing north-eastern Germany and occurring in very low numbers, we applied three citizen science tools: a mail/email report system, a smartphone application, and a webpage. Among these monitoring tools, the mail/email report system yielded the greatest number of moose reports in absolute and in standardized (corrected for time effort) terms. The reported moose were predominantly identified as single, adult, male individuals, and reports occurred mostly during late summer. Overlaying citizen science data with independently generated habitat suitability and connectivity maps showed that members of the public detected moose in suitable habitats but not necessarily in movement corridors. Also, moose detections were often recorded near roads, suggestive of spatial bias in the sampling effort. Our results suggest that citizen science-based data collection can be facilitated by brief, intuitive digital reporting systems. However, inference from the resulting data can be limited due to unquantified and possibly biased sampling effort. To overcome these challenges, we offer specific recommendations such as more structured monitoring efforts involving the public in areas likely to be roamed by moose for improving quantity, quality, and analysis of citizen science-based data for making robust inferences.
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Affiliation(s)
- Emu‐Felicitas Ostermann‐Miyashita
- Faculty of Life SciencesThaer‐Institute of Agricultural and Horticultural Sciences, Humboldt Universität zu BerlinBerlinGermany
- Leibniz Centre for Agricultural Landscape Research (ZALF)MünchebergGermany
| | - Hendrik Bluhm
- Geography DepartmentHumboldt‐Universität zu BerlinBerlinGermany
| | - Kornelia Dobiáš
- Landesbetrieb Forst Brandenburg Abt. 4Landeskompetenzzentrum Forst Eberswalde (LFE)EberswaldeGermany
| | | | - Sophia Hibler
- Leibniz Centre for Agricultural Landscape Research (ZALF)MünchebergGermany
| | | | - Frank‐Uwe Michler
- Faculty of Forest and EnvironmentEberswalde University for Sustainable DevelopmentEberswaldeGermany
| | | | - Aleksandra Smaga
- Zachodniopomorskie Towarzystwo PrzyrodniczeDzika ZagrodaMirosławiecPoland
| | - Hannes J. König
- Faculty of Life SciencesThaer‐Institute of Agricultural and Horticultural Sciences, Humboldt Universität zu BerlinBerlinGermany
| | | | - Christian Kiffner
- Leibniz Centre for Agricultural Landscape Research (ZALF)MünchebergGermany
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15
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Headland T, Colombelli-Négrel D, Callaghan CT, Sumasgutner SC, Kleindorfer S, Sumasgutner P. Smaller Australian raptors have greater urban tolerance. Sci Rep 2023; 13:11559. [PMID: 37463922 DOI: 10.1038/s41598-023-38493-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2023] [Accepted: 07/10/2023] [Indexed: 07/20/2023] Open
Abstract
Urbanisation is occurring around the world at a rapid rate and is generally associated with negative impacts on biodiversity at local, regional, and global scales. Examining the behavioural response profiles of wildlife to urbanisation helps differentiate between species that do or do not show adaptive responses to changing landscapes and hence are more or less likely to persist in such environments. Species-specific responses to urbanisation are poorly understood in the Southern Hemisphere compared to the Northern Hemisphere, where most of the published literature is focussed. This is also true for raptors, despite their high diversity and comparably high conservation concern in the Southern Hemisphere, and their critical role within ecosystems as bioindicators of environmental health. Here, we explore this knowledge gap using community science data sourced from eBird to investigate the urban tolerance of 24 Australian raptor species at a continental scale. We integrated eBird data with a global continuous measure of urbanisation, artificial light at night (ALAN), to derive an urban tolerance index, ranking species from positive to negative responses according to their tolerance of urban environments. We then gathered trait data from the published literature to assess whether certain traits (body mass, nest substrate, habitat type, feeding guild, and migratory status) were associated with urban tolerance. Body size was negatively associated with urban tolerance, as smaller raptors had greater urban tolerance than larger raptors. Out of the 24 species analysed, 13 species showed tolerance profiles for urban environments (positive response), and 11 species showed avoidance profiles for urban environments (negative response). The results of this study provide impetus to conserve native habitat and improve urban conditions for larger-bodied raptor species to conserve Australian raptor diversity in an increasingly urbanised world.
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Affiliation(s)
- Taylor Headland
- College of Science and Engineering, Flinders University, Bedford Park, SA, 5042, Australia
| | | | - Corey T Callaghan
- Department of Wildlife Ecology and Conservation, Fort Lauderdale Research and Education Center, University of Florida, Davie, FL, 33314-7719, USA
| | - Shane C Sumasgutner
- Centre for Functional Biodiversity, School of Life Sciences, University of KwaZulu-Natal, P/Bag X01, Scottsville, 3209, South Africa
- Konrad Lorenz Research Center (KLF), Core Facility for Behavior and Cognition, Department of Behavioral and Cognitive Biology, University of Vienna, Fischerau 13, 4645, Grünau/Almtal, Austria
| | - Sonia Kleindorfer
- College of Science and Engineering, Flinders University, Bedford Park, SA, 5042, Australia
- Konrad Lorenz Research Center (KLF), Core Facility for Behavior and Cognition, Department of Behavioral and Cognitive Biology, University of Vienna, Fischerau 13, 4645, Grünau/Almtal, Austria
| | - Petra Sumasgutner
- Konrad Lorenz Research Center (KLF), Core Facility for Behavior and Cognition, Department of Behavioral and Cognitive Biology, University of Vienna, Fischerau 13, 4645, Grünau/Almtal, Austria.
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16
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Geurts EM, Reynolds JD, Starzomski BM. Not all who wander are lost: Trail bias in community science. PLoS One 2023; 18:e0287150. [PMID: 37352184 PMCID: PMC10289309 DOI: 10.1371/journal.pone.0287150] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2023] [Accepted: 05/31/2023] [Indexed: 06/25/2023] Open
Abstract
The exponential growth and interest in community science programs is producing staggering amounts of biodiversity data across broad temporal and spatial scales. Large community science datasets such as iNaturalist and eBird are allowing ecologists and conservation biologists to answer novel questions that were not possible before. However, the opportunistic nature of many of these enormous datasets leads to biases. Spatial bias is a common problem, where observations are biased towards points of access like roads and trails. iNaturalist-a popular biodiversity community science platform-exhibits strong spatial biases, but it is unclear how these biases affect the quality of biodiversity data collected. Thus, we tested whether fine-scale spatial bias due to sampling from trails affects taxonomic richness estimates. We compared timed transects with experienced iNaturalist observers on and off trails in British Columbia, Canada. Using generalized linear mixed models, we found higher overall taxonomic richness on trails than off trails. In addition, we found more exotic as well as native taxa on trails than off trails. There was no difference between on and off trail observations for species that are rarely observed. Thus, fine-scale spatial bias from trails does not reduce the quality of biodiversity measurements, a promising result for those interested in using iNaturalist data for research and conservation management.
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Affiliation(s)
- Ellyne M. Geurts
- School of Environmental Studies, University of Victoria, Victoria, British Columbia, Canada
| | - John D. Reynolds
- Earth to Ocean Research Group, Department of Biological Sciences, 8888 University Drive, Simon Fraser University, Burnaby, British Columbia, Canada
| | - Brian M. Starzomski
- School of Environmental Studies, University of Victoria, Victoria, British Columbia, Canada
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17
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O'Neill D, Häkkinen H, Neumann J, Shaffrey L, Cheffings C, Norris K, Pettorelli N. Investigating the potential of social media and citizen science data to track changes in species' distributions. Ecol Evol 2023; 13:e10063. [PMID: 37168983 PMCID: PMC10166650 DOI: 10.1002/ece3.10063] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2022] [Revised: 04/14/2023] [Accepted: 04/21/2023] [Indexed: 05/13/2023] Open
Abstract
How to best track species as they rapidly alter their distributions in response to climate change has become a key scientific priority. Information on species distributions is derived from biological records, which tend to be primarily sourced from traditional recording schemes, but increasingly also by citizen science initiatives and social media platforms, with biological recording having become more accessible to the general public. To date, however, our understanding of the respective potential of social media and citizen science to complement the information gathered by traditional recording schemes remains limited, particularly when it comes to tracking species on the move with climate change. To address this gap, we investigated how species occurrence observations vary between different sources and to what extent traditional, citizen science, and social media records are complementary, using the Banded Demoiselle (Calopteryx splendens) in Britain as a case study. Banded Demoiselle occurrences were extracted from citizen science initiatives (iRecord and iNaturalist) and social media platforms (Facebook, Flickr, and Twitter), and compared with traditional records primarily sourced from the British Dragonfly Society. Our results showed that species presence maps differ between record types, with 61% of the citizen science, 58% of the traditional, and 49% of the social media observations being unique to that data type. Banded Demoiselle habitat suitability maps differed most according to traditional and social media projections, with traditional and citizen science being the most consistent. We conclude that (i) social media records provide insights into the Banded Demoiselle distribution and habitat preference that are different from, and complementary to, the insights gathered from traditional recording schemes and citizen science initiatives; (ii) predicted habitat suitability maps that ignore information from social media records can substantially underestimate (by over 3500 km2 in the case of the Banded Demoiselle) potential suitable habitat availability.
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Affiliation(s)
- Daisy O'Neill
- Institute of ZoologyZoological Society of LondonLondonUK
- Department of Geography and Environmental ScienceUniversity of ReadingReadingUK
| | - Henry Häkkinen
- Institute of ZoologyZoological Society of LondonLondonUK
| | - Jessica Neumann
- Department of Geography and Environmental ScienceUniversity of ReadingReadingUK
| | - Len Shaffrey
- National Centre for Atmospheric ScienceUniversity of ReadingReadingUK
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18
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Neate-Clegg MHC, Tonelli BA, Youngflesh C, Wu JX, Montgomery GA, Şekercioğlu ÇH, Tingley MW. Traits shaping urban tolerance in birds differ around the world. Curr Biol 2023; 33:1677-1688.e6. [PMID: 37023752 DOI: 10.1016/j.cub.2023.03.024] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/08/2022] [Revised: 12/24/2022] [Accepted: 03/09/2023] [Indexed: 04/08/2023]
Abstract
As human density increases, biodiversity must increasingly co-exist with urbanization or face local extinction. Tolerance of urban areas has been linked to numerous functional traits, yet few globally consistent patterns have emerged to explain variation in urban tolerance, which stymies attempts at a generalizable predictive framework. Here, we calculate an Urban Association Index (UAI) for 3,768 bird species in 137 cities across all permanently inhabited continents. We then assess how this UAI varies as a function of ten species-specific traits and further test whether the strength of trait relationships vary as a function of three city-specific variables. Of the ten species traits, nine were significantly associated with urban tolerance. Urban-associated species tend to be smaller, less territorial, have greater dispersal ability, broader dietary and habitat niches, larger clutch sizes, greater longevity, and lower elevational limits. Only bill shape showed no global association with urban tolerance. Additionally, the strength of several trait relationships varied across cities as a function of latitude and/or human population density. For example, the associations of body mass and diet breadth were more pronounced at higher latitudes, while the associations of territoriality and longevity were reduced in cities with higher population density. Thus, the importance of trait filters in birds varies predictably across cities, indicating biogeographic variation in selection for urban tolerance that could explain prior challenges in the search for global patterns. A globally informed framework that predicts urban tolerance will be integral to conservation as increasing proportions of the world's biodiversity are impacted by urbanization.
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Affiliation(s)
- Montague H C Neate-Clegg
- Ecology and Evolutionary Biology, University of California, Los Angeles, Los Angeles, CA 90095, USA.
| | - Benjamin A Tonelli
- Ecology and Evolutionary Biology, University of California, Los Angeles, Los Angeles, CA 90095, USA
| | - Casey Youngflesh
- Ecology and Evolutionary Biology, University of California, Los Angeles, Los Angeles, CA 90095, USA; Ecology, Evolution, and Behavior Program, Michigan State University, East Lansing, MI 48824, USA
| | - Joanna X Wu
- Ecology and Evolutionary Biology, University of California, Los Angeles, Los Angeles, CA 90095, USA
| | - Graham A Montgomery
- Ecology and Evolutionary Biology, University of California, Los Angeles, Los Angeles, CA 90095, USA
| | - Çağan H Şekercioğlu
- School of Biological Sciences, University of Utah, Salt Lake City, UT 84112, USA; Department of Molecular Biology and Genetics, Koç University, Sarıyer, 34450 İstanbul, Türkiye
| | - Morgan W Tingley
- Ecology and Evolutionary Biology, University of California, Los Angeles, Los Angeles, CA 90095, USA
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19
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Summers J, Lukas D, Logan CJ, Chen N. The role of climate change and niche shifts in divergent range dynamics of a sister-species pair. PEER COMMUNITY JOURNAL 2023; 3:e23. [PMID: 37424524 PMCID: PMC10328137 DOI: 10.24072/pcjournal.248] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Indexed: 07/11/2023]
Abstract
Species ranges are set by limitations in factors including climate tolerances, habitat use, and dispersal abilities. Understanding the factors governing species range dynamics remains a challenge that is ever more important in our rapidly changing world. Species ranges can shift if environmental changes affect available habitat, or if the niche or habitat connectivity of a species changes. We tested how changes in habitat availability, niche, or habitat connectivity could contribute to divergent range dynamics in a sister-species pair. The great-tailed grackle (Quiscalus mexicanus) has expanded its range northward from Texas to Nebraska in the past 40 years, while its closest relative, the boattailed grackle (Quiscalus major), has remained tied to the coasts of the Atlantic Ocean and the Gulf of Mexico as well as the interior of Florida. We created species distribution and connectivity models trained on citizen science data from 1970-1979 and 2010-2019 to determine how the availability of habitat, the types of habitat occupied, and range-wide connectivity have changed for both species. We found that the two species occupy distinct habitats and that the great-tailed grackle has shifted to occupy a larger breadth of urban, arid environments farther from natural water sources. Meanwhile, the boattailed grackle has remained limited to warm, wet, coastal environments. We found no evidence that changes in habitat connectivity affected the ranges of either species. Overall, our results suggest that the great-tailed grackle has shifted its realized niche as part of its rapid range expansion, while the range dynamics of the boat-tailed grackle may be shaped more by climate change. The expansion in habitats occupied by the great-tailed grackle is consistent with observations that species with high behavioral flexibility can rapidly expand their geographic range by using human-altered habitat. This investigation identifies how opposite responses to anthropogenic change could drive divergent range dynamics, elucidating the factors that have and will continue to shape species ranges.
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Affiliation(s)
| | - Dieter Lukas
- Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
| | - Corina J Logan
- Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
- University of California Santa Barbara, Santa Barbara, CA, USA
| | - Nancy Chen
- University of Rochester, Rochester, NY, USA
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20
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Sutton LJ, Ibañez JC, Salvador DI, Taraya RL, Opiso GS, Senarillos TLP, McClure CJW. Priority conservation areas and a global population estimate for the critically endangered Philippine Eagle. Anim Conserv 2023. [DOI: 10.1111/acv.12854] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/15/2023]
Affiliation(s)
| | - J. C. Ibañez
- Philippine Eagle Foundation Philippine Eagle Center Davao City Philippines
- University of the Philippines – Mindanao Davao City Philippines
| | - D. I. Salvador
- Philippine Eagle Foundation Philippine Eagle Center Davao City Philippines
| | - R. L. Taraya
- Philippine Eagle Foundation Philippine Eagle Center Davao City Philippines
| | - G. S. Opiso
- Philippine Eagle Foundation Philippine Eagle Center Davao City Philippines
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21
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Navedo JG, Piersma T. Do 50‐year‐old Ramsar criteria still do the best possible job? A plea for broadened scientific underpinning of the global protection of wetlands and migratory waterbirds. Conserv Lett 2023. [DOI: 10.1111/conl.12941] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/11/2023] Open
Affiliation(s)
- Juan G. Navedo
- Millennium Institute Biodiversity of Antarctic and Subantarctic Ecosystems (BASE) Santiago Chile
- Bird Ecology Lab, Instituto de Ciencias Marinas y Limnológicas Universidad Austral de Chile Valdivia Chile
- Área de Zoología Universidad de Extremadura Badajoz Spain
- BirdEyes, Centre for Global Ecological Change at the Faculties of Science & Engineering and Campus Fryslân University of Groningen Leeuwarden The Netherlands
| | - Theunis Piersma
- BirdEyes, Centre for Global Ecological Change at the Faculties of Science & Engineering and Campus Fryslân University of Groningen Leeuwarden The Netherlands
- Rudi Drent Chair in Global Flyway Ecology Conservation Ecology Group, University of Groningen Groningen The Netherlands
- Department of Coastal Systems NIOZ Royal Netherlands Institute for Sea Research Den Burg The Netherlands
- Center for East Asian–Australasian Flyway Studies, School of Ecology and Nature Conservation Beijing Forestry University Beijing China
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22
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Anderson CM, Fahrig L, Rausch J, Martin J, Daufresne T, Smith PA. Climate-related range shifts in Arctic-breeding shorebirds. Ecol Evol 2023; 13:e9797. [PMID: 36778838 PMCID: PMC9905660 DOI: 10.1002/ece3.9797] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2022] [Revised: 01/12/2023] [Accepted: 01/19/2023] [Indexed: 02/11/2023] Open
Abstract
Aim To test whether the occupancy of shorebirds has changed in the eastern Canadian Arctic, and whether these changes could indicate that shorebird distributions are shifting in response to long-term climate change. Location Foxe Basin and Rasmussen Lowlands, Nunavut, Canada. Methods We used a unique set of observations, made 25 years apart, using general linear models to test if there was a relationship between changes in shorebird species' occupancy and their species temperature Index, a simple version of a species climate envelope. Results Changes in occupancy and density varied widely across species, with some increasing and some decreasing. This is despite that overall population trends are known to be negative for all of these species based on surveys during migration. The changes in occupancy that we observed were positively related to the species temperature index, such that the warmer-breeding species appear to be moving into these regions, while colder-breeding species appear to be shifting out of the regions, likely northward. Main Conclusions Our results suggest that we should be concerned about declining breeding habitat availability for bird species whose current breeding ranges are centered on higher and colder latitudes.
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Affiliation(s)
- Christine M. Anderson
- Department of Biology, Geomatics and Landscape Ecology LaboratoryCarleton UniversityOttawaOntarioCanada
| | - Lenore Fahrig
- Department of Biology, Geomatics and Landscape Ecology LaboratoryCarleton UniversityOttawaOntarioCanada
| | - Jennie Rausch
- Canadian Wildlife ServiceEnvironment and Climate Change CanadaYellowknifeNorthwest TerritoriesCanada
| | - Jean‐Louis Martin
- Centre d'Écologie Fonctionnelle et ÉvolutiveCNRSMontpellier Cedex 5France
| | | | - Paul A. Smith
- Wildlife Research DivisionEnvironment and Climate Change CanadaOttawaOntarioCanada
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23
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Anderson RP. Integrating habitat-masked range maps with quantifications of prevalence to estimate area of occupancy in IUCN assessments. CONSERVATION BIOLOGY : THE JOURNAL OF THE SOCIETY FOR CONSERVATION BIOLOGY 2023; 37:e14019. [PMID: 36285611 PMCID: PMC10099578 DOI: 10.1111/cobi.14019] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/12/2022] [Revised: 07/11/2022] [Accepted: 08/16/2022] [Indexed: 06/16/2023]
Abstract
Estimates of species geographic ranges constitute critical input for biodiversity assessments, including those for the International Union for the Conservation of Nature (IUCN) Red List of Threatened Species. Area of occupancy (AOO) is one metric that IUCN uses to quantify a species' range, but data limitations typically lead to either under- or overestimates (and unnecessarily wide bounds of uncertainty). Fortunately, existing methods in which range maps and land-cover data are used to estimate the area currently holding habitat for a species can be extended to yield an unbiased range of plausible estimates for AOO. Doing so requires estimating the proportion of sites (currently containing habitat) that a species occupies within its range (i.e., prevalence). Multiplying a quantification of habitat area by prevalence yields an estimate of what the species inhabits (i.e., AOO). For species with intense sampling at many sites, presence-absence data sets or occupancy modeling allow calculation of prevalence. For other species, primary biodiversity data (records of a species' presence at a point in space and time) from citizen-science initiatives and research collections of natural history museums and herbaria could be used. In such cases, estimates of sample prevalence should be corrected by dividing by the species' detectability. To estimate detectability from these data sources, extensions of inventory-completeness analyses merit development. With investments to increase the quality and availability of online biodiversity data, consideration of prevalence should lead to tighter and more realistic bounds of AOO for many taxonomic groups and geographic regions. By leading to more realistic and representative characterizations of biodiversity, integrating maps of current habitat with estimates of prevalence should empower conservation practitioners and decision makers and thus guide actions and policy worldwide.
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Affiliation(s)
- Robert P. Anderson
- Department of Biology, City College of New YorkCity University of New YorkNew YorkNew YorkUSA
- Ph.D. Program in BiologyGraduate Center, City University of New YorkNew YorkNew YorkUSA
- Division of Vertebrate Zoology (Mammalogy)American Museum of Natural HistoryNew YorkNew YorkUSA
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24
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Davis CL, Guralnick RP, Zipkin EF. Challenges and opportunities for using natural history collections to estimate insect population trends. J Anim Ecol 2023; 92:237-249. [PMID: 35716080 DOI: 10.1111/1365-2656.13763] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2021] [Accepted: 06/13/2022] [Indexed: 11/28/2022]
Abstract
Natural history collections (NHC) provide a wealth of information that can be used to understand the impacts of global change on biodiversity. As such, there is growing interest in using NHC data to estimate changes in species' distributions and abundance trends over historic time horizons when contemporary survey data are limited or unavailable. However, museum specimens were not collected with the purpose of estimating population trends and thus can exhibit spatiotemporal and collector-specific biases that can impose severe limitations to using NHC data for evaluating population trajectories. Here we review the challenges associated with using museum records to track long-term insect population trends, including spatiotemporal biases in sampling effort and sparse temporal coverage within and across years. We highlight recent methodological advancements that aim to overcome these challenges and discuss emerging research opportunities. Specifically, we examine the potential of integrating museum records and other contemporary data sources (e.g. collected via structured, designed surveys and opportunistic citizen science programs) in a unified analytical framework that accounts for the sampling biases associated with each data source. The emerging field of integrated modelling provides a promising framework for leveraging the wealth of collections data to accurately estimate long-term trends of insect populations and identify cases where that is not possible using existing data sources.
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Affiliation(s)
- Courtney L Davis
- Department of Integrative Biology; Ecology, Evolution, and Behavior Program, Michigan State University, East Lansing, Michigan, USA.,Cornell Lab of Ornithology, Cornell University, Ithaca, New York, USA
| | - Robert P Guralnick
- Florida Museum of Natural History, University of Florida, Gainesville, Florida, USA.,Biodiversity Institute, University of Florida, Gainesville, Florida, USA
| | - Elise F Zipkin
- Department of Integrative Biology; Ecology, Evolution, and Behavior Program, Michigan State University, East Lansing, Michigan, USA
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25
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Joint analysis of structured and semi-structured community science data improves precision of relative abundance but not trends in birds. Sci Rep 2022; 12:20289. [PMID: 36433999 PMCID: PMC9700822 DOI: 10.1038/s41598-022-23603-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/08/2021] [Accepted: 11/02/2022] [Indexed: 11/27/2022] Open
Abstract
Estimating absolute and relative abundance of wildlife populations is critical to addressing ecological questions and conservation needs, yet obtaining reliable estimates can be challenging because surveys are often limited spatially or temporally. Community science (i.e., citizen science) provides opportunities for semi-structured data collected by the public (e.g., eBird) to improve capacity of relative abundance estimation by complementing structured survey data collected by trained observers (e.g., North American breeding bird survey [BBS]). We developed two state-space models to estimate relative abundance and population trends: one using BBS data and the other jointly analyzing BBS and eBird data. We applied these models to seven bird species with diverse life history characteristics. Joint analysis of eBird and BBS data improved precision of mean and year-specific relative abundance estimates for all species, but the BBS-only model produced more precise trend estimates compared to the joint model for most species. The relative abundance estimates of the joint model were particularly more precise than the BBS-only estimates in areas where species detectability was low resulting from either low BBS survey effort or low abundance. These results suggest that community science data can be a valuable resource for cost-effective improvement in wildlife abundance estimation.
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Haas EK, La Sorte FA, McCaslin HM, Belotti MCTD, Horton KG. The correlation between eBird community science and weather surveillance radar-based estimates of migration phenology. GLOBAL ECOLOGY AND BIOGEOGRAPHY : A JOURNAL OF MACROECOLOGY 2022; 31:2219-2230. [PMID: 36590324 PMCID: PMC9795923 DOI: 10.1111/geb.13567] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/10/2021] [Revised: 06/11/2022] [Accepted: 06/28/2022] [Indexed: 06/17/2023]
Abstract
AIM Measuring avian migration can prove challenging given the spatial scope and the diversity of species involved. No one monitoring technique provides all the pertinent measures needed to capture this macroscale phenomenon - emphasizing the need for data integration. Migration phenology is a key metric characterizing large-scale migration dynamics and has been successfully quantified using weather surveillance radar (WSR) data and community science observations. Separately, both platforms have their limitations and measure different aspects of bird migration. We sought to make a formal comparison of the migration phenology estimates derived from WSR and eBird data - of which we predict a positive correlation. LOCATION Contiguous United States. TIME PERIOD 2002-2018. MAJOR TAXA STUDIED Migratory birds. METHODS We estimated spring and autumn migration phenology at 143 WSR stations aggregated over a 17-year period (2002-2018), which we contrast with eBird-based estimates of spring and autumn migration phenology for 293 nocturnally migrating bird species at the 143 WSR stations. We compared phenology metrics derived from all species and WSR stations combined, for species in three taxonomic orders (Anseriformes, Charadriiformes and Passeriformes), and for WSR stations in three North American migration flyways (western, central and eastern). RESULTS We found positive correlations between WSR and eBird-based estimates of migration phenology and differences in the strength of correlations among taxonomic orders and migration flyways. The correlations were stronger during spring migration, for Passeriformes, and generally for WSR stations in the eastern flyway. Autumn migration showed weaker correlation, and in Anseriformes correlations were weakest overall. Lastly, eBird-based estimates slightly preceded those derived from WSR in the spring, but trailed WSR in the autumn, suggesting that the two data sources measure different components of migration phenology. MAIN CONCLUSIONS We highlight the complementarity of these two approaches, but also reveal strong taxonomic and geographic differences in the relationships between the platforms.
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Affiliation(s)
- Elaina K. Haas
- Department of Fish, Wildlife, and Conservation BiologyColorado State UniversityFort CollinsColoradoUSA
| | | | - Hanna M. McCaslin
- Department of Fish, Wildlife, and Conservation BiologyColorado State UniversityFort CollinsColoradoUSA
| | - Maria C. T. D. Belotti
- Department of Fish, Wildlife, and Conservation BiologyColorado State UniversityFort CollinsColoradoUSA
| | - Kyle G. Horton
- Department of Fish, Wildlife, and Conservation BiologyColorado State UniversityFort CollinsColoradoUSA
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Thompson MM, Rowley JJL, Poore AGB, Callaghan CT. Citizen science reveals meteorological determinants of frog calling at a continental scale. DIVERS DISTRIB 2022. [DOI: 10.1111/ddi.13634] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022] Open
Affiliation(s)
- Maureen M. Thompson
- Centre for Ecosystem Science; School of Biological Earth and Environmental Sciences (BEES) University of New South Wales Sydney New South Wales Australia
- Australian Museum Research Institute, Australian Museum Sydney New South Wales Australia
| | - Jodi J. L. Rowley
- Centre for Ecosystem Science; School of Biological Earth and Environmental Sciences (BEES) University of New South Wales Sydney New South Wales Australia
- Australian Museum Research Institute, Australian Museum Sydney New South Wales Australia
| | - Alistair G. B. Poore
- Centre for Ecosystem Science; School of Biological Earth and Environmental Sciences (BEES) University of New South Wales Sydney New South Wales Australia
- Evolution and Ecology Research Centre, School of Biological Earth and Environmental Science University of New South Wales Sydney New South Wales Australia
| | - Corey T. Callaghan
- German Centre for Integrative Biodiversity Research (iDiv) Halle‐Jena‐Leipzig Leipzig Germany
- Institute of Biology Martin Luther University Halle Halle (Saale) Germany
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Belitz MW, Larsen EA, Shirey V, Li D, Guralnick RP. Phenological research based on natural history collections: practical guidelines and a Lepidopteran case study. Funct Ecol 2022. [DOI: 10.1111/1365-2435.14173] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
Affiliation(s)
- Michael W. Belitz
- Florida Museum of Natural History University of Florida Gainesville FL USA
| | - Elise A. Larsen
- Department of Biology Georgetown University Washington DC USA
| | - Vaughn Shirey
- Department of Biology Georgetown University Washington DC USA
| | - Daijiang Li
- Department of Biological Sciences Louisiana State University Baton Rouge LA USA
- Center for Computation & Technology Louisiana State University Baton Rouge LA USA
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Masto NM, Robinson OJ, Brasher MG, Keever AC, Blake‐Bradshaw AG, Highway CJ, Feddersen JC, Hagy HM, Osborne DC, Combs DL, Cohen BS. Citizen science reveals waterfowl responses to extreme winter weather. GLOBAL CHANGE BIOLOGY 2022; 28:5469-5479. [PMID: 35656733 PMCID: PMC9545755 DOI: 10.1111/gcb.16288] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/31/2021] [Accepted: 05/12/2022] [Indexed: 06/15/2023]
Abstract
Global climate change is increasing the frequency and severity of extreme climatic events (ECEs) which may be especially detrimental during late-winter when many species are surviving on scarce resources. However, monitoring animal populations relative to ECEs is logistically challenging. Crowd-sourced datasets may provide opportunity to monitor species' responses to short-term chance phenomena such as ECEs. We used 14 years of eBird-a global citizen science initiative-to examine distribution changes for seven wintering waterfowl species across North America in response to recent extreme winter polar vortex disruptions. To validate inferences from eBird, we compared eBird distribution changes against locational data from 362 GPS-tagged Mallards (Anas platyrhynchos) in the Mississippi Flyway. Distributional shifts between eBird and GPS-tagged Mallards were similar following an ECE in February 2021. In general, the ECE affected continental waterfowl population distributions; however, responses were variable across species and flyways. Waterfowl distributions tended to stay near wintering latitudes or moved north at lesser distances compared with non-ECE years, suggesting preparedness for spring migration was a stronger "pull" than extreme weather was a "push" pressure. Surprisingly, larger-bodied waterfowl with grubbing foraging strategies (i.e., geese) delayed their northward range shift during ECE years, whereas smaller-bodied ducks were less affected. Lastly, wetland obligate species shifted southward during ECE years. Collectively, these results suggest specialized foraging strategies likely related to resource limitations, but not body size, necessitate movement from extreme late-winter weather in waterfowl. Our results demonstrate eBird's potential to monitor population-level effects of weather events, especially severe ECEs. eBird and other crowd-sourced datasets can be valuable to identify species which are adaptable or vulnerable to ECEs and thus, begin to inform conservation policy and management to combat negative effects of global climate change.
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Affiliation(s)
- Nicholas M. Masto
- College of Arts and SciencesTennessee Technological UniversityCookevilleTennesseeUSA
| | | | | | - Allison C. Keever
- College of Arts and SciencesTennessee Technological UniversityCookevilleTennesseeUSA
| | | | - Cory J. Highway
- College of Arts and SciencesTennessee Technological UniversityCookevilleTennesseeUSA
| | - Jamie C. Feddersen
- Division of Wildlife and ForestryTennessee Wildlife Resources AgencyNashvilleTennesseeUSA
| | - Heath M. Hagy
- National Wildlife Refuge SystemU.S. Fish and Wildlife ServiceStantonTennesseeUSA
| | - Douglas C. Osborne
- College of Forestry, Agriculture, and Natural ResourcesUniversity of Arkansas at MonticelloMonticelloArkansasUSA
| | - Daniel L. Combs
- College of Arts and SciencesTennessee Technological UniversityCookevilleTennesseeUSA
| | - Bradley S. Cohen
- College of Arts and SciencesTennessee Technological UniversityCookevilleTennesseeUSA
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30
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Carroll KA, Farwell LS, Pidgeon AM, Razenkova E, Gudex-Cross D, Helmers DP, Lewińska KE, Elsen PR, Radeloff VC. Mapping breeding bird species richness at management-relevant resolutions across the United States. ECOLOGICAL APPLICATIONS : A PUBLICATION OF THE ECOLOGICAL SOCIETY OF AMERICA 2022; 32:e2624. [PMID: 35404493 DOI: 10.1002/eap.2624] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/02/2021] [Revised: 01/26/2022] [Accepted: 02/01/2022] [Indexed: 06/14/2023]
Abstract
Human activities alter ecosystems everywhere, causing rapid biodiversity loss and biotic homogenization. These losses necessitate coordinated conservation actions guided by biodiversity and species distribution spatial data that cover large areas yet have fine-enough resolution to be management-relevant (i.e., ≤5 km). However, most biodiversity products are too coarse for management or are only available for small areas. Furthermore, many maps generated for biodiversity assessment and conservation do not explicitly quantify the inherent tradeoff between resolution and accuracy when predicting biodiversity patterns. Our goals were to generate predictive models of overall breeding bird species richness and species richness of different guilds based on nine functional or life-history-based traits across the conterminous United States at three resolutions (0.5, 2.5, and 5 km) and quantify the tradeoff between resolution and accuracy and, hence, relevance for management of the resulting biodiversity maps. We summarized 18 years of North American Breeding Bird Survey data (1992-2019) and modeled species richness using random forests, including 66 predictor variables (describing climate, vegetation, geomorphology, and anthropogenic conditions), 20 of which we newly derived. Among the three spatial resolutions, the percentage variance explained ranged from 27% to 60% (median = 54%; mean = 57%) for overall species richness and 12% to 87% (median = 61%; mean = 58%) for our different guilds. Overall species richness and guild-specific species richness were best explained at 5-km resolution using ~24 predictor variables based on percentage variance explained, symmetric mean absolute percentage error, and root mean square error values. However, our 2.5-km-resolution maps were almost as accurate and provided more spatially detailed information, which is why we recommend them for most management applications. Our results represent the first consistent, occurrence-based, and nationwide maps of breeding bird richness with a thorough accuracy assessment that are also spatially detailed enough to inform local management decisions. More broadly, our findings highlight the importance of explicitly considering tradeoffs between resolution and accuracy to create management-relevant biodiversity products for large areas.
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Affiliation(s)
- Kathleen A Carroll
- SILVIS Lab, Department of Forest and Wildlife Ecology, University of Wisconsin-Madison, Madison, Wisconsin, USA
| | - Laura S Farwell
- SILVIS Lab, Department of Forest and Wildlife Ecology, University of Wisconsin-Madison, Madison, Wisconsin, USA
| | - Anna M Pidgeon
- SILVIS Lab, Department of Forest and Wildlife Ecology, University of Wisconsin-Madison, Madison, Wisconsin, USA
| | - Elena Razenkova
- SILVIS Lab, Department of Forest and Wildlife Ecology, University of Wisconsin-Madison, Madison, Wisconsin, USA
| | - David Gudex-Cross
- SILVIS Lab, Department of Forest and Wildlife Ecology, University of Wisconsin-Madison, Madison, Wisconsin, USA
| | - David P Helmers
- SILVIS Lab, Department of Forest and Wildlife Ecology, University of Wisconsin-Madison, Madison, Wisconsin, USA
| | - Katarzyna E Lewińska
- SILVIS Lab, Department of Forest and Wildlife Ecology, University of Wisconsin-Madison, Madison, Wisconsin, USA
| | - Paul R Elsen
- SILVIS Lab, Department of Forest and Wildlife Ecology, University of Wisconsin-Madison, Madison, Wisconsin, USA
| | - Volker C Radeloff
- SILVIS Lab, Department of Forest and Wildlife Ecology, University of Wisconsin-Madison, Madison, Wisconsin, USA
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Comparing N-mixture models and GLMMs for relative abundance estimation in a citizen science dataset. Sci Rep 2022; 12:12276. [PMID: 35853908 PMCID: PMC9296480 DOI: 10.1038/s41598-022-16368-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2022] [Accepted: 07/08/2022] [Indexed: 11/16/2022] Open
Abstract
To analyze species count data when detection is imperfect, ecologists need models to estimate relative abundance in the presence of unknown sources of heterogeneity. Two candidate models are generalized linear mixed models (GLMMs) and hierarchical N-mixture models. GLMMs are computationally robust but do not explicitly separate detection from abundance patterns. N-mixture models separately estimate detection and abundance via a latent state but are sensitive to violations in assumptions and subject to practical estimation issues. When one can assume that detection is not systematically confounded with ecological patterns of interest, these two models can be viewed as sharing a heuristic framework for relative abundance estimation. Model selection can then determine which predicts observed counts best, for example by AIC. We compared four N-mixture model variants and two GLMM variants for predicting bird counts in local subsets of a citizen science dataset, eBird, based on model selection and goodness-of-fit measures. We found that both GLMMs and N-mixture models—especially N-mixtures with beta-binomial detection submodels—were supported in a moderate number of datasets, suggesting that both tools are useful and that relative fit is context-dependent. We provide faster software implementations of N-mixture likelihood calculations and a reparameterization to interpret unstable estimates for N-mixture models.
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32
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Mayadunnage S, Stannard HJ, West P, Old JM. Identification of roadkill hotspots and the factors affecting wombat vehicle collisions using the citizen science tool, WomSAT. AUSTRALIAN MAMMALOGY 2022. [DOI: 10.1071/am22001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
Roads directly impact wildlife through vehicle collisions. In Australia only a few studies have examined the impact of environmental characteristics on wombat roadkill. We analysed wombat roadkills reported into WomSAT, a website and application where citizen scientists can upload sightings of wombats, to map wombat roadkill across their distribution. We used Maxent software to identify the main factors influencing wombat roadkill hotspots. A total of 2391 wombat deaths on roads were reported by 567 citizen scientists from 2015 to 2019. More wombat roadkill deaths occurred in winter, with most unaffected by sarcoptic mange. The average daily solar exposure, distance to populated areas, precipitation of warmest quarter (bio 18), temperature seasonality (bio 4), and precipitation seasonality (bio 15) were identified as the main factors influencing wombat roadkill. The most roadkills reported per kilometre (3.7/km) occurred on Old Bega Road and Steeple Flat Road, in the New South Wales southern tablelands. Reduced reporting corresponded with a reduced number of citizen scientists continuing to report sightings over time, reflecting the limitations of the data collected by citizen scientists. However, data should continue to be collected by citizen scientists as it is an easy and low-cost method of collecting data over large areas, and can provide information to managers to support conservation efforts directed at reducing roadkill. Our study emphasises the need to continue to engage and reward citizen scientists for their efforts.
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33
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Mueller JM, Sesnie SE, Lehnen SE, Davis HT, Giocomo JJ, Macey JN, Long AM. Multi‐scale species density model for conserving an endangered songbird. J Wildl Manage 2022. [DOI: 10.1002/jwmg.22236] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- James M. Mueller
- U.S. Fish and Wildlife Service, Balcones Canyonlands National Wildlife Refuge 24518 FM 1431 Marble Falls TX 78654 USA
| | - Steven E. Sesnie
- U.S. Fish and Wildlife Service, Division of Biological Sciences PO Box 1306 Albuquerque NM 87103‐1306 USA
| | - Sarah E. Lehnen
- U.S. Fish and Wildlife Service, Division of Biological Sciences PO Box 1306 Albuquerque NM 87103‐1306 USA
| | | | | | - John N. Macey
- Natural and Cultural Resources, Installation Management Command Fort Hood TX 76544 USA
| | - Ashley M. Long
- Agricultural Center and School of Renewable Natural Resources Louisiana State University Baton Rouge LA 70803 USA
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34
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Girish KS, Srinivasan U. Community science data provide evidence for upward elevational range shifts by Eastern Himalayan birds. Biotropica 2022. [DOI: 10.1111/btp.13133] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
Affiliation(s)
| | - Umesh Srinivasan
- Centre for Ecological Sciences Indian Institute of Science Bangalore India
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35
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Shirey V, Khelifa R, M’Gonigle LK, Guzman LM. Occupancy‐detection models with museum specimen data: promise and pitfalls. Methods Ecol Evol 2022. [DOI: 10.1111/2041-210x.13896] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Vaughn Shirey
- Department of Biology Georgetown University Washington DC United States
| | - Rassim Khelifa
- Department of Zoology, University of British Columbia 6270 University Blvd Vancouver United States
| | - Leithen K. M’Gonigle
- Department of Biological Sciences, Simon Fraser University 8888 University Drive Burnaby BC Canada
| | - Laura Melissa Guzman
- Department of Biological Sciences, Simon Fraser University 8888 University Drive Burnaby BC Canada
- Marine and Environmental Biology Section at the Department of Biological Sciences University of Southern California Los Angeles CA United States
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36
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Species richness response to human pressure hides important assemblage transformations. Proc Natl Acad Sci U S A 2022; 119:e2107361119. [PMID: 35500119 DOI: 10.1073/pnas.2107361119] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
SignificanceHuman activities are causing biodiversity loss, but there is still strong debate on their effect on species richness. Here, I propose a unification of five trajectories of species richness response to increasing human pressure under the "replace then remove framework." It consists in a first phase of assemblage transformation (with the replacement of "loser" by "winner" species), often followed by a second phase of steep decline in species richness (with the decline of many winner species) when human pressure exceeds a certain threshold. The empirical results presented in this study provide an outstanding illustration of assemblage transformations that may cause biotic homogenization, demonstrating how habitat specialist, endemic, sensitive, and threatened species are replaced by others with increasing human pressure.
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37
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Species profiles support recommendations for quality filtering of opportunistic citizen science data. Ecol Modell 2022. [DOI: 10.1016/j.ecolmodel.2022.109910] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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38
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Casabona I Amat C, Adde A, Mazerolle MJ, Lepage C, Darveau M. Breeding expansion of sandhill cranes in Quebec. J Wildl Manage 2022. [DOI: 10.1002/jwmg.22169] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Clara Casabona I Amat
- Département des sciences du bois et de la forêt Université Laval Québec QC G1V 0A6 Canada
| | - Antoine Adde
- Département des sciences du bois et de la forêt Université Laval Québec QC G1V 0A6 Canada
| | - Marc J. Mazerolle
- Centre d'étude de la forêt, Département des sciences du bois et de la forêt Université Laval Québec QC G1V 0A6 Canada
| | - Christine Lepage
- Canadian Wildlife Service Environment and Climate Change Canada Québec QC G1J 0C3 Canada
| | - Marcel Darveau
- Département des sciences du bois et de la forêt Université Laval Québec QC G1V 0A6 Canada
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39
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Dansereau G, Legendre P, Poisot T. Evaluating ecological uniqueness over broad spatial extents using species distribution modelling. OIKOS 2022. [DOI: 10.1111/oik.09063] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Gabriel Dansereau
- Dépt de Sciences Biologiques, Univ. de Montréal Montréal Canada
- Québec Centre for Biodiversity Science Montréal Canada
| | - Pierre Legendre
- Dépt de Sciences Biologiques, Univ. de Montréal Montréal Canada
- Québec Centre for Biodiversity Science Montréal Canada
| | - Timothée Poisot
- Dépt de Sciences Biologiques, Univ. de Montréal Montréal Canada
- Québec Centre for Biodiversity Science Montréal Canada
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40
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Extreme uncertainty and unquantifiable bias do not inform population sizes. Proc Natl Acad Sci U S A 2022; 119:e2113862119. [PMID: 35238655 PMCID: PMC8915789 DOI: 10.1073/pnas.2113862119] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022] Open
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41
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Tirozzi P, Orioli V, Dondina O, Kataoka L, Bani L. Population trends from count data: Handling environmental bias, overdispersion and excess of zeroes. ECOL INFORM 2022. [DOI: 10.1016/j.ecoinf.2022.101629] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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42
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Johnston A, Matechou E, Dennis E. Outstanding challenges and future directions for biodiversity monitoring using citizen science data. Methods Ecol Evol 2022. [DOI: 10.1111/2041-210x.13834] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Alison Johnston
- Centre for Research into Ecological and Environmental Modelling, Department of Maths and Statistics University of St Andrews St Andrews UK
- Cornell Lab of Ornithology, 159 Sapsucker Woods Road Ithaca NY USA
| | - Eleni Matechou
- School of Mathematics, Statistics and Actuarial Science, University of Kent, Canterbury Kent UK
| | - Emily Dennis
- School of Mathematics, Statistics and Actuarial Science, University of Kent, Canterbury Kent UK
- Butterfly Conservation, Manor Yard, East Lulworth, Wareham Dorset UK
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Detecting and Visualizing Observation Hot-Spots in Massive Volunteer-Contributed Geographic Data across Spatial Scales Using GPU-Accelerated Kernel Density Estimation. ISPRS INTERNATIONAL JOURNAL OF GEO-INFORMATION 2022. [DOI: 10.3390/ijgi11010055] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Volunteer-contributed geographic data (VGI) is an important source of geospatial big data that support research and applications. A major concern on VGI data quality is that the underlying observation processes are inherently biased. Detecting observation hot-spots thus helps better understand the bias. Enabled by the parallel kernel density estimation (KDE) computational tool that can run on multiple GPUs (graphics processing units), this study conducted point pattern analyses on tens of millions of iNaturalist observations to detect and visualize volunteers’ observation hot-spots across spatial scales. It was achieved by setting varying KDE bandwidths in accordance with the spatial scales at which hot-spots are to be detected. The succession of estimated density surfaces were then rendered at a sequence of map scales for visual detection of hot-spots. This study offers an effective geovisualization scheme for hierarchically detecting hot-spots in massive VGI datasets, which is useful for understanding the pattern-shaping drivers that operate at multiple spatial scales. This research exemplifies a computational tool that is supported by high-performance computing and capable of efficiently detecting and visualizing multi-scale hot-spots in geospatial big data and contributes to expanding the toolbox for geospatial big data analytics.
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Supp SR, Bohrer G, Fieberg J, La Sorte FA. Estimating the movements of terrestrial animal populations using broad-scale occurrence data. MOVEMENT ECOLOGY 2021; 9:60. [PMID: 34895345 PMCID: PMC8665594 DOI: 10.1186/s40462-021-00294-2] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/10/2021] [Accepted: 11/11/2021] [Indexed: 06/14/2023]
Abstract
As human and automated sensor networks collect increasingly massive volumes of animal observations, new opportunities have arisen to use these data to infer or track species movements. Sources of broad scale occurrence datasets include crowdsourced databases, such as eBird and iNaturalist, weather surveillance radars, and passive automated sensors including acoustic monitoring units and camera trap networks. Such data resources represent static observations, typically at the species level, at a given location. Nonetheless, by combining multiple observations across many locations and times it is possible to infer spatially continuous population-level movements. Population-level movement characterizes the aggregated movement of individuals comprising a population, such as range contractions, expansions, climate tracking, or migration, that can result from physical, behavioral, or demographic processes. A desire to model population movements from such forms of occurrence data has led to an evolving field that has created new analytical and statistical approaches that can account for spatial and temporal sampling bias in the observations. The insights generated from the growth of population-level movement research can complement the insights from focal tracking studies, and elucidate mechanisms driving changes in population distributions at potentially larger spatial and temporal scales. This review will summarize current broad-scale occurrence datasets, discuss the latest approaches for utilizing them in population-level movement analyses, and highlight studies where such analyses have provided ecological insights. We outline the conceptual approaches and common methodological steps to infer movements from spatially distributed occurrence data that currently exist for terrestrial animals, though similar approaches may be applicable to plants, freshwater, or marine organisms.
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Affiliation(s)
- Sarah R. Supp
- Data Analytics Program, Denison University, Granville, OH 43023 USA
| | - Gil Bohrer
- Department of Civil, Environmental and Geodetic Engineering, The Ohio State University, Columbus, OH 43210 USA
| | - John Fieberg
- Department of Fisheries, Wildlife, and Conservation Biology, University of Minnesota, Minneapolis, MN 55455 USA
| | - Frank A. La Sorte
- Cornell Lab of Ornithology, Cornell University, Ithaca, NY 14850 USA
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45
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Mandeville CP, Koch W, Nilsen EB, Finstad AG. Open Data Practices among Users of Primary Biodiversity Data. Bioscience 2021; 71:1128-1147. [PMID: 34733117 PMCID: PMC8560312 DOI: 10.1093/biosci/biab072] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Presence-only biodiversity data are increasingly relied on in biodiversity, ecology, and conservation research, driven by growing digital infrastructures that support open data sharing and reuse. Recent reviews of open biodiversity data have clearly documented the value of data sharing, but the extent to which the biodiversity research community has adopted open data practices remains unclear. We address this question by reviewing applications of presence-only primary biodiversity data, drawn from a variety of sources beyond open databases, in the indexed literature. We characterize how frequently researchers access open data relative to data from other sources, how often they share newly generated or collated data, and trends in metadata documentation and data citation. Our results indicate that biodiversity research commonly relies on presence-only data that are not openly available and neglects to make such data available. Improved data sharing and documentation will increase the value, reusability, and reproducibility of biodiversity research.
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Affiliation(s)
- Caitlin P Mandeville
- Department of Natural History, Norwegian University of Science and Technology, Trondheim, Norway
| | - Wouter Koch
- Department of Natural History, Norwegian University of Science and Technology, Trondheim, Norway
| | - Erlend B Nilsen
- Faculty of Biosciences and Aquaculture, Nord University, Steinkjer, Norway
| | - Anders G Finstad
- Department of Natural History, Norwegian University of Science and Technology, Trondheim, Norway
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46
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Iknayan KJ, Wheeler MM, Safran SM, Young JS, Spotswood EN. What makes urban parks good for California quail? Evaluating park suitability, species persistence, and the potential for reintroduction into a large urban national park. J Appl Ecol 2021. [DOI: 10.1111/1365-2664.14045] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
| | | | - Samuel M. Safran
- San Francisco Estuary Institute Richmond CA USA
- Department of Fisheries, Wildlife, and Conservation Biology University of Minnesota Minneapolis MN USA
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47
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Palacio RD, Negret PJ, Velásquez‐Tibatá J, Jacobson AP. A data‐driven geospatial workflow to map species distributions for conservation assessments. DIVERS DISTRIB 2021. [DOI: 10.1111/ddi.13424] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022] Open
Affiliation(s)
- Ruben Dario Palacio
- Nicholas School of the Environment Duke University Durham North Carolina USA
- Fundación Ecotonos Santiago de Cali Valle del Cauca Colombia
| | - Pablo Jose Negret
- Centre for Biodiversity and Conservation Science University of Queensland Brisbane Queensland Australia
- School of Earth and Environmental Sciences University of Queensland Brisbane Queensland Australia
| | | | - Andrew P. Jacobson
- Department of Environment and Sustainability Catawba College Salisbury North Carolina USA
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48
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Zulian V, Miller DAW, Ferraz G. Integrating citizen‐science and planned‐survey data improves species distribution estimates. DIVERS DISTRIB 2021. [DOI: 10.1111/ddi.13416] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022] Open
Affiliation(s)
- Viviane Zulian
- Programa de Pós‐Graduação em Ecologia Instituto de Biociências Universidade Federal do Rio Grande do Sul Porto Alegre Brazil
| | - David A. W. Miller
- Department of Ecosystem Science and Management Pennsylvania State University University Park Pennsylvania USA
| | - Gonçalo Ferraz
- Programa de Pós‐Graduação em Ecologia Instituto de Biociências Universidade Federal do Rio Grande do Sul Porto Alegre Brazil
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49
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Bradter U, Ozgul A, Griesser M, Layton‐Matthews K, Eggers J, Singer A, Sandercock BK, Haverkamp PJ, Snäll T. Habitat suitability models based on opportunistic citizen science data: Evaluating forecasts from alternative methods versus an individual‐based model. DIVERS DISTRIB 2021. [DOI: 10.1111/ddi.13409] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022] Open
Affiliation(s)
- Ute Bradter
- SLU Swedish Species Information Centre Swedish University of Agricultural Sciences Uppsala Sweden
- Department of Terrestrial Ecology Norwegian Institute for Nature Research Trondheim Norway
| | - Arpat Ozgul
- Department of Evolutionary Biology and Environmental Studies University of Zurich Zurich Switzerland
| | - Michael Griesser
- Department of Evolutionary Biology and Environmental Studies University of Zurich Zurich Switzerland
- Department of Biology University of Konstanz Konstanz Germany
- Centre for the Advanced Study of Collective Behaviour University of Konstanz Konstanz Germany
| | - Kate Layton‐Matthews
- Department of Evolutionary Biology and Environmental Studies University of Zurich Zurich Switzerland
- Norwegian Institute for Nature Research Tromsø Norway
| | - Jeannette Eggers
- SLU Swedish Species Information Centre Swedish University of Agricultural Sciences Uppsala Sweden
- Department of Forest Resource Management Swedish University of Agricultural Sciences Umeå Sweden
| | - Alexander Singer
- SLU Swedish Species Information Centre Swedish University of Agricultural Sciences Uppsala Sweden
| | - Brett K. Sandercock
- Department of Terrestrial Ecology Norwegian Institute for Nature Research Trondheim Norway
| | - Paul J. Haverkamp
- Department of Evolutionary Biology and Environmental Studies University of Zurich Zurich Switzerland
| | - Tord Snäll
- SLU Swedish Species Information Centre Swedish University of Agricultural Sciences Uppsala Sweden
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50
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Cazalis V, Barnes MD, Johnston A, Watson JEM, Şekercioğlu CH, Rodrigues ASL. Mismatch between bird species sensitivity and the protection of intact habitats across the Americas. Ecol Lett 2021; 24:2394-2405. [PMID: 34397138 DOI: 10.1111/ele.13859] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2021] [Revised: 05/06/2021] [Accepted: 06/27/2021] [Indexed: 11/30/2022]
Abstract
Protected areas are highly heterogeneous in their effectiveness at buffering human pressure, which may hamper their ability to conserve species highly sensitive to human activities. Here, we use 60 million bird observations from eBird to estimate the sensitivity to human pressure of each bird species breeding in the Americas. Concerningly, we find that ecoregions hosting large proportions of high-sensitivity species, concentrated in tropical biomes, do not have more intact protected habitat. Moreover, 266 high-sensitivity species have little or no intact protected habitat within their distributions. Finally, we show that protected area intactness is decreasing faster where high-sensitivity species concentrate. Our results highlight a major mismatch between species conservation needs and the coverage of intact protected habitats, which likely hampers the long-term effectiveness of protected areas at retaining species. We highlight ecoregions where protection and management of intact habitats, complemented by restoration, is urgently needed.
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Affiliation(s)
- Victor Cazalis
- CEFE, Univ Montpellier, CNRS, EPHE, IRD, Montpellier, France.,German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Leipzig, Germany.,Leipzig University, Leipzig, Germany
| | - Megan D Barnes
- Centre for Environmental Economics and Policy, School of Agriculture and Environment, University of Western Australia, Crawley, Western Australia, Australia
| | - Alison Johnston
- Cornell Lab of Ornithology, Cornell University, Ithaca, NY, USA
| | - James E M Watson
- Centre for Biodiversity and Conservation Science, School of Earth and Environmental Sciences, University of Queensland, St Lucia, Qld, Australia
| | - Cagan H Şekercioğlu
- School of Biological Sciences, University of Utah, Salt Lake City, UT, USA.,Department of Molecular Biology and Genetics, Koç University, Sarıyer, İstanbul, Turkey
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