1
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de la Fuente A, Briscoe NJ, Kearney MR, Williams SE, Youngentob KN, Marsh KJ, Cernusak LA, Leahy L, Larson J, Krockenberger AK. Climate-Induced Physiological Stress Drives Rainforest Mammal Population Declines. GLOBAL CHANGE BIOLOGY 2025; 31:e70215. [PMID: 40321023 PMCID: PMC12050993 DOI: 10.1111/gcb.70215] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/18/2024] [Revised: 04/04/2025] [Accepted: 04/12/2025] [Indexed: 05/08/2025]
Abstract
Climate change is a major driver of global biodiversity loss, yet the precise mechanisms linking climate change to population declines remain poorly understood. We developed a novel, broadly applicable framework that integrates biophysical, nutritional, and population modeling to capture fundamental physiological constraints on mammalian herbivores and applied it to investigate the causes of declines in ringtail possums of the Australian Wet Tropics (Pseudochirops archeri and Hemibelideus lemuroides). Our approach bridges the gap between mechanistic ("bottom-up") models, which simulate species' responses based solely on their traits and local microclimates, and the more common ("top-down") statistical models, which infer species' responses from occurrence or abundance data and standard environmental variables. We quantified population dynamics over a 30-year period by generating species-specific estimates of temperature and water stress, foraging limitations, and linking these with annual monitoring and nutritional quality within an open population model. Our findings demonstrate that climate change has impacted populations through physiological stress, but in a species-specific manner. Both species have experienced population collapses at lower elevations and in low-nutritional sites. For P. archeri, we found evidence that population changes were driven by reduced survival due to overheating and dehydration, alongside diminished recruitment from limited foraging. In contrast, our model suggests that H. lemuroides populations were primarily affected by foraging constraints, emphasizing the importance of considering climate-driven limitations on foraging activity in addition to direct physiological stress. These mechanistic insights offer a foundation for targeted conservation strategies to mitigate the impacts of climate pressures on wild populations.
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Affiliation(s)
| | - Natalie J. Briscoe
- School of Agriculture, Food and Ecosystem ScienceThe University of MelbourneMelbourneVictoriaAustralia
| | - Michael R. Kearney
- School of BioSciencesThe University of MelbourneMelbourneVictoriaAustralia
| | - Stephen E. Williams
- College of Science and EngineeringJames Cook UniversityTownsvilleQueenslandAustralia
| | - Kara N. Youngentob
- The Fenner School of Environmental and SocietyAustralian National UniversityCanberraAustralian Capital TerritoryAustralia
| | - Karen J. Marsh
- Research School of BiologyAustralian National UniversityCanberraAustralian Capital TerritoryAustralia
| | - Lucas A. Cernusak
- College of Science and EngineeringJames Cook UniversityCairnsQueenslandAustralia
| | - Lily Leahy
- Department of Ecological, Plant, and Animal SciencesLa Trobe UniversityMelbourneAustralia
| | - Johan Larson
- College of Science and EngineeringJames Cook UniversityCairnsQueenslandAustralia
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2
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Alberti S, Pollo A, Cerrato C, Viterbi R, Balletto E, Dapporto L, Bonelli S, Piccini I. Unrecorded Butterfly Species and Potential Local Extinctions: The Role of Citizen Science and Sampling. Ecol Evol 2025; 15:e71023. [PMID: 39967758 PMCID: PMC11832908 DOI: 10.1002/ece3.71023] [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: 07/12/2024] [Revised: 01/24/2025] [Accepted: 02/03/2025] [Indexed: 02/20/2025] Open
Abstract
Estimating species extinction risk is crucial to reverse biodiversity loss and to adopt proper conservation measures. Different sources may play a pivotal role in prioritising species conservation. Recently, citizen science demonstrated a substantial role, especially when it comes to butterflies. This study examines species records and richness in Aosta Valley, which represents one of the highest mountain areas in Europe. Through 30,351 data points from 1825 to 2022, the impact and efficiency of three groups of data sources were investigated: literature (i.e., publications and collections), sampling (butterfly experts' recording), and citizen science (open-source databases). The study also aims to assess the extinction potential of the butterflies in relation to functional traits. The results showed that even if there were significant differences in the number of records between the three sources, there were no significant differences for species recorded. Moreover, 2.9% of the butterfly community risks extinction, and it is related to some response traits. Indeed, extinction risks increase when the altitudinal range decreases and for multivoltines. In conclusion, citizen science has a strong impact on the amount of data and could be exploited to fill data gaps at low/medium altitudes. However, professional sampling is needed to focus on species no longer reported, and in particular on species that are difficult to identify, have specific distributions or particular traits (e.g., limited altitudinal range). Using different data sources, extinction risk estimation, and trait analysis, it is possible to prioritise studies on some species using different efforts (sampling and/or citizen sciences).
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Affiliation(s)
- S. Alberti
- Department of Life Sciences and Systems BiologyUniversity of TurinTurinItaly
| | - A. Pollo
- Department of Life Sciences and Systems BiologyUniversity of TurinTurinItaly
| | - C. Cerrato
- Department of Life Sciences and Systems BiologyUniversity of TurinTurinItaly
- Gran Paradiso National ParkTurinItaly
| | | | - E. Balletto
- Department of Life Sciences and Systems BiologyUniversity of TurinTurinItaly
| | - L. Dapporto
- Department of BiologyUniversity of FlorenceFlorenceItaly
| | - S. Bonelli
- Department of Life Sciences and Systems BiologyUniversity of TurinTurinItaly
| | - I. Piccini
- Department of Life Sciences and Systems BiologyUniversity of TurinTurinItaly
- Department of ZoologyPoznań University of Life SciencesPoznańPoland
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3
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Praveenraj J, Thackeray T, Moulitharan N, Vijayakrishnan B, Nanda GK. Lost for more than 85 years-rediscovery of Channa amphibeus (McClelland, 1845), the world's most elusive snakehead species (Teleostei, Labyrinthici, Channidae). Zootaxa 2025; 5583:87-100. [PMID: 40174124 DOI: 10.11646/zootaxa.5583.1.4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2025] [Indexed: 04/04/2025]
Abstract
The Chel Snakehead or Bora Chung, Channa amphibeus, is a large snakehead species endemic to the Himalayan region of India. Channa amphibeus was last recorded from specimens collected in the years between 1918 and 1933 (Shaw & Shebbeare 1938), leading to speculations that it may have gone extinct. Here, we report the re-discovery of the species after more than 85 years, based on three specimens collected in the year 2024, and additional photographic records. We also provide the first live image of C. amphibeus, along with biometric, and genetic data.
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Affiliation(s)
- Jayasimhan Praveenraj
- Indian Council of Agricultural Research-Central Island Agricultural Research Institute (ICAR-CIARI); Port Blair; Andaman and Nicobar Islands; India; 744 101.
| | - Tejas Thackeray
- Thackeray Wildlife Foundation; Bandra; Mumbai; India; 400 051.
| | - Nallathambi Moulitharan
- Dr. M.G.R. Fisheries College and Research Institute; Tamil Nadu Dr.J.Jayalalithaa Fisheries University; Ponneri; India; 601 204.
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4
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McRae L, Cornford R, Marconi V, Puleston H, Ledger SE, Deinet S, Oppenheimer P, Hoffmann M, Freeman R. The utility of the Living Planet Index as a policy tool and for measuring nature recovery. Philos Trans R Soc Lond B Biol Sci 2025; 380:20230207. [PMID: 39780599 PMCID: PMC11712285 DOI: 10.1098/rstb.2023.0207] [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: 01/28/2024] [Revised: 09/23/2024] [Accepted: 10/24/2024] [Indexed: 01/11/2025] Open
Abstract
The Living Planet Index (LPI) is a leading global biodiversity indicator based on vertebrate population time series. Since it was first developed over 25 years ago, the LPI has been widely used to indicate trends in biodiversity globally, primarily reported every two years in the Living Planet Report. Based on relative abundance, a sensitive metric of biodiversity change, the LPI has also been applied as a tool for informing policy and used in assessments for several multilateral conventions and agreements, including the Convention on Biological Diversity 2010 Biodiversity Target and Aichi targets. Here, we outline all current and some potential uses of the LPI as a policy tool and explore the use of the LPI in policy documents to assess the reach of the LPI geographically and over time. We present limitations to the use of this indicator in policy, primarily relating to the development of the index at the national level, and suggest clear pathways to broaden the utility of the LPI and the underlying database for temporal and spatial predictions of biodiversity change. We also provide evidence that the LPI can detect recoveries in biodiversity and suggest its suitability for measuring progress towards the goal of biodiversity recovery by 2050.This article is part of the discussion meeting issue 'Bending the curve towards nature recovery: building on Georgina Mace's legacy for a biodiverse future'.
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Affiliation(s)
- Louise McRae
- Institute of Zoology, Zoological Society of London, LondonNW1 4RY, UK
- Genetics, Evolution and Environment, University College London, LondonWC1E 6BT, UK
| | - Richard Cornford
- IIASA, International Institute for Applied Systems Analysis (IIASA), Biodiversity and Natural Resources Program, Laxenburg2361, Austria
| | - Valentina Marconi
- Institute of Zoology, Zoological Society of London, LondonNW1 4RY, UK
| | - Hannah Puleston
- Institute of Zoology, Zoological Society of London, LondonNW1 4RY, UK
| | | | - Stefanie Deinet
- Institute of Zoology, Zoological Society of London, LondonNW1 4RY, UK
| | | | - Mike Hoffmann
- Conservation and Policy, Zoological Society of London, LondonNW1 4RY, UK
| | - Robin Freeman
- Institute of Zoology, Zoological Society of London, LondonNW1 4RY, UK
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5
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Kiss R, Lukács K, Godó L, Tóth Á, Miglécz T, Szél L, Demeter L, Deák B, Valkó O. Understanding the effects of weather parameters on the population dynamics of an endangered geophyte supports monitoring efficiency. Sci Rep 2024; 14:25974. [PMID: 39472485 PMCID: PMC11522697 DOI: 10.1038/s41598-024-76942-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2024] [Accepted: 10/17/2024] [Indexed: 11/02/2024] Open
Abstract
Due to their complex life cycles geophytes are often neglected in conservation programs, despite they are important elements of early spring communities. Their life cycle is strongly affected by weather parameters, i.e. temperature, precipitation, and light, but the effects of these parameters are often contradictory and show high intra-annual variability even within species. Deeper knowledge about the abiotic factors affecting the population dynamics of geophytes is needed to support the designation of effective conservation plans. We aimed to explore the link between weather parameters and population dynamics of Colchicum bulbocodium, an endangered and strictly protected geophyte. We monitored three life cycle stages (flowering, growing, fruiting) of 1069 individuals in permanent plots for six consecutive years. Our results showed that life cycle of C. bulbocodium was strongly related to the actual weather parameters; the lagged effect of the previous year was weaker. Increasing temperature and lack of cold periods had negative effect on all life stages. We highlighted that population estimation based on the number of flowering individuals in a single year can underestimate population size by 40-83%. Monitoring in years following wet and cold springs and cold winters could increase the accuracy of population estimations of the flowering individuals.
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Affiliation(s)
- Réka Kiss
- 'Lendület' Seed Ecology Research Group, Institute of Ecology and Botany, HUN-REN Centre for Ecological Research, Vácrátót, Hungary.
| | - Katalin Lukács
- 'Lendület' Seed Ecology Research Group, Institute of Ecology and Botany, HUN-REN Centre for Ecological Research, Vácrátót, Hungary
- National Laboratory for Health Security, HUN-REN Centre for Ecological Research, Budapest, Hungary
| | - Laura Godó
- 'Lendület' Seed Ecology Research Group, Institute of Ecology and Botany, HUN-REN Centre for Ecological Research, Vácrátót, Hungary
| | - Ágnes Tóth
- National Laboratory for Health Security, HUN-REN Centre for Ecological Research, Budapest, Hungary
- Department of Ecology, University of Szeged, Szeged, Hungary
| | - Tamás Miglécz
- Hungarian Research Institute for Organic Agriculture, Budapest, Hungary
| | - László Szél
- Hortobágy National Park Directorate, Debrecen, Hungary
| | | | - Balázs Deák
- 'Lendület' Seed Ecology Research Group, Institute of Ecology and Botany, HUN-REN Centre for Ecological Research, Vácrátót, Hungary
| | - Orsolya Valkó
- 'Lendület' Seed Ecology Research Group, Institute of Ecology and Botany, HUN-REN Centre for Ecological Research, Vácrátót, Hungary
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6
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Pérez‐Sorribes L, Villar‐Yanez P, Smeds L, Mergeay J. Comparing Genetic Ne Reconstructions Over Time With Long-Time Wolf Monitoring Data in Two Populations. Evol Appl 2024; 17:e70022. [PMID: 39430439 PMCID: PMC11486914 DOI: 10.1111/eva.70022] [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: 04/30/2024] [Revised: 08/26/2024] [Accepted: 09/23/2024] [Indexed: 10/22/2024] Open
Abstract
Many methods are now available to calculate N e , but their performance varies depending on assumptions. Although simulated data are useful to discover certain types of bias, real empirical data supported by detailed known population histories allow us to discern how well methods perform with actual messy and complex data. Here, we focus on two genomic data sets of grey wolf populations for which population size changes of the past 40-120 years are well documented. We use this background to explore in what detail we can retrieve the known population history from these populations, in the light of pitfalls relating to population history, sampling design and the change in the spatial scale at which N e is estimated as we go further back in time. The Scandinavian wolf population was founded in the early 1980s from a few individuals and has gradually expanded up to 510 wolves. Although the founder event of the Scandinavian population was detected by GONE, the founding effective population size was strongly overestimated when the most recent samples were used, but less so when older samples were considered. Nevertheless, the present-day N e corresponds to theoretical expectations. The western Great Lakes wolf population of Minnesota is the only population in the contiguous United States that persisted throughout the 20th century, surviving intense persecution. We found a good concordance between the estimated N e and trends in census size data, but the reconstruction of N e clearly highlights the difficulty of interpreting results in spatially structured populations that underwent demographic fluctuations.
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Affiliation(s)
| | | | - Linnéa Smeds
- Department of Ecology and GeneticsUppsala UniversityUppsalaSweden
| | - Joachim Mergeay
- Research Institute for Nature and ForestGeraardsbergenBelgium
- Ecology, Evolution and Biodiversity ConservationKU LeuvenLeuvenBelgium
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7
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Turvey ST, Lau EYX, Duncan C, Ma H, Liu H. Assessing the information-content of messy data to reconstruct population recovery dynamics for the world's rarest primate. Ecol Evol 2024; 14:e70089. [PMID: 39114163 PMCID: PMC11303811 DOI: 10.1002/ece3.70089] [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: 02/06/2024] [Revised: 06/20/2024] [Accepted: 07/16/2024] [Indexed: 08/10/2024] Open
Abstract
Understanding the dynamics of population recovery in threatened species requires robust longitudinal monitoring datasets. However, evidence-based decision-making is often impeded by variable data collection approaches, necessitating critical evaluation of restricted available baselines. The Hainan gibbon, the world's rarest primate, had possibly declined to only seven or eight individuals in 1978 at Bawangling National Nature Reserve but has experienced subsequent population growth. Past population estimates lack detailed reporting of survey effort, and multiple conflicting estimates are available, hindering assessment of gibbon recovery. We investigated all reported estimates of Bawangling gibbon population size from 1978 to 2022, to evaluate the biological signal of population trends and the extent to which noise associated with varying survey effort, reporting and estimation may mask or misrepresent any underlying signal. This longitudinal dataset demonstrates that the Bawangling population experienced a series of bottlenecks and recoveries, with three successive periods of growth interspersed by population crashes (1978-1989, 1989-2000 and 2000-2022). The rate of gibbon population recovery was progressively slower over time in each successive period of growth, and this potential decline in recovery rate following serial bottlenecks suggests that additional management strategies may be required alongside "nature-based solutions" for this species. However, population viability analysis suggests the 1978 founder population is unlikely to have been as low as seven individuals, raising concerns for interpreting reported historical population counts and understanding the dynamics of the species' recovery. We caution against overinterpreting potential signals within "messy" conservation datasets, and we emphasise the crucial importance of standardised replicable survey methods and transparent reporting of data and effort in all future surveys of Hainan gibbons and other highly threatened species.
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Affiliation(s)
| | | | - Clare Duncan
- Institute of ZoologyZoological Society of LondonLondonUK
- Centre for Ecology & Conservation, Biosciences, College of Life and Environmental SciencesUniversity of ExeterCornwallUK
| | - Heidi Ma
- Institute of ZoologyZoological Society of LondonLondonUK
| | - Hui Liu
- School of Tropical Agriculture and ForestryHainan UniversityHaikouChina
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8
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Soriano-Redondo A, Correia RA, Barve V, Brooks TM, Butchart SHM, Jarić I, Kulkarni R, Ladle RJ, Vaz AS, Di Minin E. Harnessing online digital data in biodiversity monitoring. PLoS Biol 2024; 22:e3002497. [PMID: 38358955 PMCID: PMC10868793 DOI: 10.1371/journal.pbio.3002497] [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] [Indexed: 02/17/2024] Open
Abstract
Online digital data from media platforms have the potential to complement biodiversity monitoring efforts. We propose a strategy for integrating these data into current biodiversity datasets in light of the Kunming-Montreal Global Biodiversity Framework.
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Affiliation(s)
- Andrea Soriano-Redondo
- Helsinki Lab of Interdisciplinary Conservation Science (HELICS), Department of Geosciences and Geography, University of Helsinki, Helsinki, Finland
| | - Ricardo A. Correia
- Helsinki Lab of Interdisciplinary Conservation Science (HELICS), Department of Geosciences and Geography, University of Helsinki, Helsinki, Finland
- Helsinki Institute of Sustainability Science (HELSUS), University of Helsinki, Helsinki, Finland
- Biodiversity Unit, University of Turku, Turku, Finland
| | - Vijay Barve
- Marine Biodiversity Center, Natural History Museum of Los Angeles County, Los Angeles, California, United States of America
| | - Thomas M. Brooks
- International Union for Conservation of Nature (IUCN), Gland, Switzerland
- World Agroforestry Center (ICRAF), University of the Philippines Los Baños, Laguna, Philippines
- Institute for Marine and Antarctic Studies, University of Tasmania, Hobart, Tasmania, Australia
| | - Stuart H. M. Butchart
- BirdLife International, Cambridge, United Kingdom
- Department of Zoology, University of Cambridge, Cambridge, United Kingdom
| | - Ivan Jarić
- Université Paris-Saclay, CNRS, AgroParisTech, Ecologie Systématique Evolution–IDEEV, Gif-sur-Yvette, France
- Biology Centre of the Czech Academy of Sciences, Institute of Hydrobiology, České Budějovice, Czech Republic
| | - Ritwik Kulkarni
- Helsinki Lab of Interdisciplinary Conservation Science (HELICS), Department of Geosciences and Geography, University of Helsinki, Helsinki, Finland
| | - Richard J. Ladle
- Instituto de Ciências Biológicas e da Saúde, Universidade Federal de Alagoas, Maceió, Brazil
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, Vairão, Portugal
| | - Ana Sofia Vaz
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, Vairão, Portugal
- Departamento de Biologia, Faculdade de Ciências, Universidade do Porto, Porto, Portugal
- BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO, Campus de Vairão, Vairão, Portugal
| | - Enrico Di Minin
- Helsinki Lab of Interdisciplinary Conservation Science (HELICS), Department of Geosciences and Geography, University of Helsinki, Helsinki, Finland
- Helsinki Institute of Sustainability Science (HELSUS), University of Helsinki, Helsinki, Finland
- School of Life Sciences, University of KwaZulu-Natal, Durban, South Africa
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9
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Lindken T, Anderson CV, Ariano-Sánchez D, Barki G, Biggs C, Bowles P, Chaitanya R, Cronin DT, Jähnig SC, Jeschke JM, Kennerley RJ, Lacher TE, Luedtke JA, Liu C, Long B, Mallon D, Martin GM, Meiri S, Pasachnik SA, Reynoso VH, Stanford CB, Stephenson PJ, Tolley KA, Torres-Carvajal O, Waldien DL, Woinarski JCZ, Evans T. What factors influence the rediscovery of lost tetrapod species? GLOBAL CHANGE BIOLOGY 2024; 30. [PMID: 38273552 DOI: 10.1111/gcb.17107] [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: 09/19/2023] [Revised: 11/24/2023] [Accepted: 12/07/2023] [Indexed: 01/27/2024]
Abstract
We created a database of lost and rediscovered tetrapod species, identified patterns in their distribution and factors influencing rediscovery. Tetrapod species are being lost at a faster rate than they are being rediscovered, due to slowing rates of rediscovery for amphibians, birds and mammals, and rapid rates of loss for reptiles. Finding lost species and preventing future losses should therefore be a conservation priority. By comparing the taxonomic and spatial distribution of lost and rediscovered tetrapod species, we have identified regions and taxa with many lost species in comparison to those that have been rediscovered-our results may help to prioritise search effort to find them. By identifying factors that influence rediscovery, we have improved our ability to broadly distinguish the types of species that are likely to be found from those that are not (because they are likely to be extinct). Some lost species, particularly those that are small and perceived to be uncharismatic, may have been neglected in terms of conservation effort, and other lost species may be hard to find due to their intrinsic characteristics and the characteristics of the environments they occupy (e.g. nocturnal species, fossorial species and species occupying habitats that are more difficult to survey such as wetlands). These lost species may genuinely await rediscovery. However, other lost species that possess characteristics associated with rediscovery (e.g. large species) and that are also associated with factors that negatively influence rediscovery (e.g. those occupying small islands) are more likely to be extinct. Our results may foster pragmatic search protocols that prioritise lost species likely to still exist.
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Affiliation(s)
- Tim Lindken
- Institute of Biology, Freie Universität Berlin, Berlin, Germany
| | - Christopher V Anderson
- Department of Biology, University of South Dakota, Vermillion, South Dakota, USA
- IUCN SSC Chameleon Specialist Group, Gland, Switzerland
| | - Daniel Ariano-Sánchez
- Centro de Estudios Ambientales y Biodiversidad, Universidad del Valle de Guatemala, Guatemala City, Guatemala
- Department of Natural Sciences and Environmental Health, University of South-Eastern Norway, Notodden, Norway
| | - Goni Barki
- Albert Katz International School for Desert Studies, The Jacob Blaustein Institutes for Desert Research, Ben-Gurion University of the Negev, Midreshet Ben-Gurion, Israel
- Mitrani Department of Desert Ecology, The Jacob Blaustein Institutes for Desert Research, Ben-Gurion University of the Negev, Midreshet Ben-Gurion, Israel
| | | | - Philip Bowles
- IUCN SSC Snake and Lizard Red List Authority, Gland, Switzerland
| | - Ramamoorthi Chaitanya
- The School of Zoology and The Steinhardt Museum of Natural History, Tel Aviv University, Tel Aviv, Israel
| | | | - Sonja C Jähnig
- Leibniz Institute of Freshwater Ecology and Inland Fisheries, Berlin, Germany
- Geography Department, Humboldt-Universität zu Berlin, Berlin, Germany
| | - Jonathan M Jeschke
- Institute of Biology, Freie Universität Berlin, Berlin, Germany
- Leibniz Institute of Freshwater Ecology and Inland Fisheries, Berlin, Germany
- IUCN SSC Invasive Species Specialist Group, Gland, Switzerland
| | - Rosalind J Kennerley
- Durrell Wildlife Conservation Trust, Jersey, UK
- IUCN SSC Small Mammal Specialist Group, Gland, Switzerland
| | - Thomas E Lacher
- Re:wild, Austin, Texas, USA
- IUCN SSC Small Mammal Specialist Group, Gland, Switzerland
- Department of Ecology and Conservation Biology, Texas A&M University, College Station, Texas, USA
| | - Jennifer A Luedtke
- Re:wild, Austin, Texas, USA
- IUCN SSC Amphibian Specialist Group, Gland, Switzerland
| | - Chunlong Liu
- College of Fisheries, Ocean University of China, Qingdao, China
- Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, China
| | | | - David Mallon
- Department of Natural Sciences, Manchester Metropolitan University, Manchester, UK
| | - Gabriel M Martin
- Centro de Investigación Esquel de Montaña y Estepa Patagónica (CIEMEP), Esquel, Argentina
- IUCN SSC New World Marsupials Specialist Group, Gland, Switzerland
| | - Shai Meiri
- The School of Zoology and The Steinhardt Museum of Natural History, Tel Aviv University, Tel Aviv, Israel
| | | | - Victor Hugo Reynoso
- Departamento de Zoología/Pabellón de la Biodiversidad, Instituto de Biología, Universidad Nacional Autónoma de México, Mexico City, Mexico
| | - Craig B Stanford
- Department of Biological Sciences, University of Southern California, Los Angeles, California, USA
- Department of Herpetology, Natural History Museum of Los Angeles County, Los Angeles, California, USA
- IUCN SSC Tortoise and Freshwater Turtle Specialist Group, Gland, Switzerland
| | - P J Stephenson
- Laboratory for Conservation Biology, Department of Ecology and Evolution, University of Lausanne, Lausanne, Switzerland
- IUCN SSC Species Monitoring Specialist Group, Gland, Switzerland
- IUCN SSC Afrotheria Specialist Group, Gland, Switzerland
| | - Krystal A Tolley
- IUCN SSC Chameleon Specialist Group, Gland, Switzerland
- Kirstenbosch Research Centre, South African National Biodiversity Institute, Cape Town, South Africa
- Centre for Ecological Genomics and Wildlife Conservation, University of Johannesburg, Johannesburg, South Africa
| | - Omar Torres-Carvajal
- Museo de Zoología, Escuela de Ciencias Biológicas, Pontificia Universidad Católica del Ecuador, Quito, Ecuador
| | - David L Waldien
- IUCN SSC Bat Specialist Group, Gland, Switzerland
- Christopher Newport University, Newport News, Virginia, USA
- Lubee Bat Conservancy, Gainesville, Florida, USA
- Harrison Institute, Kent, UK
| | | | - Thomas Evans
- Institute of Biology, Freie Universität Berlin, Berlin, Germany
- Leibniz Institute of Freshwater Ecology and Inland Fisheries, Berlin, Germany
- IUCN SSC Invasive Species Specialist Group, Gland, Switzerland
- Ecologie Systématique et Evolution, Université Paris-Saclay, Gif-sur-Yvette, France
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10
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Lukanov S, Kolev A, Dimitrova B, Popgeorgiev G. Rice Fields as Important Habitats for Three Anuran Species-Significance and Implications for Conservation. Animals (Basel) 2023; 14:106. [PMID: 38200836 PMCID: PMC10778459 DOI: 10.3390/ani14010106] [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: 12/04/2023] [Revised: 12/21/2023] [Accepted: 12/21/2023] [Indexed: 01/12/2024] Open
Abstract
Agriculture can have different effects on wildlife depending on land-use type and extensive/intensive practices. The aim of this study was to establish the significance of rice fields in Central Bulgaria as anuran habitats. We used Audiomoth acoustic loggers to record calling activity at three sites near the city of Plovdiv-one shallow pond and two rice fields-from June to September in 2022 and 2023. We registered the three most widespread species in the region-Bufotes viridis, Hyla orientalis and Pelophylax ridibundus-and created pattern-matching models for them using the free web interface Arbimon, which enabled us to perform presence/absence counts and abundance estimates. At the beginning and the end of the rice vegetation period, water samples were collected and analysed for 62 substances. Substance concentrations were compared between ponds and with LC50 data from the available literature. We registered 19 and 21 substances in 2022 and 2023, respectively, with concentrations within the accepted limits, and although some metals were near risk levels, this was not reflected in the presence counts or the abundance estimates. The results indicated that frog activity was not related to any of the registered substances, but that it was positively correlated with daily rainfall and was higher in the rice fields.
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Affiliation(s)
- Simeon Lukanov
- Institute of Biodiversity and Ecosystem Research, Bulgarian Academy of Sciences, Sofia 1000, Bulgaria;
| | - Andrey Kolev
- Faculty of Biology, Sofia University “St. Kliment Ohridski”, Sofia 1164, Bulgaria;
| | - Blagovesta Dimitrova
- Institute of Biodiversity and Ecosystem Research, Bulgarian Academy of Sciences, Sofia 1000, Bulgaria;
| | - Georgi Popgeorgiev
- National Museum of Natural History, Bulgarian Academy of Sciences, Sofia 1000, Bulgaria;
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11
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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: 0.5] [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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12
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Murphy KJ, Ciuti S, Burkitt T, Morera-Pujol V. Bayesian areal disaggregation regression to predict wildlife distribution and relative density with low-resolution data. ECOLOGICAL APPLICATIONS : A PUBLICATION OF THE ECOLOGICAL SOCIETY OF AMERICA 2023; 33:e2924. [PMID: 37804526 DOI: 10.1002/eap.2924] [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: 02/23/2023] [Revised: 07/20/2023] [Accepted: 08/18/2023] [Indexed: 10/09/2023]
Abstract
For species of conservation concern and human-wildlife conflict, it is imperative that spatial population data be available to design adaptive-management strategies and be prepared to meet challenges such as land use and climate change, disease outbreaks, and invasive species spread. This can be difficult, perhaps impossible, if spatially explicit wildlife data are not available. Low-resolution areal counts, however, are common in wildlife monitoring, that is, the number of animals reported for a region, usually corresponding to administrative subdivisions, for example, region, province, county, departments, or cantons. Bayesian areal disaggregation regression is a solution to exploit areal counts and provide conservation biologists with high-resolution species distribution predictive models. This method originated in epidemiology but lacks experimentation in ecology. It provides a plethora of applications to change the way we collect and analyze data for wildlife populations. Based on high-resolution environmental rasters, the disaggregation method disaggregates the number of individuals observed in a region and distributes them at the pixel level (e.g., 5 × 5 km or finer resolution), thereby converting low-resolution data into a high-resolution distribution and indices of relative density. In our demonstrative study, we disaggregated areal count data from hunting bag returns to disentangle the changing distribution and population dynamics of three deer species (red, sika, and fallow) in Ireland from 2000 to 2018. We show an application of the Bayesian areal disaggregation regression method and document marked increases in relative population density and extensive range expansion for each of the three deer species across Ireland. We challenged our disaggregated model predictions by correlating them with independent deer surveys carried out in field sites and alternative deer distribution models built using presence-only and presence-absence data. Finding a high correlation with both independent data sets, we highlighted the ability of Bayesian areal disaggregation regression to accurately capture fine-scale spatial patterns of animal distribution. This study uncovers new scenarios for wildlife managers and conservation biologists to reliably use regional count data disregarded so far in species distribution modeling. Thus, it represents a step forward in our ability to monitor wildlife population and meet challenges in our changing world.
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Affiliation(s)
- Kilian J Murphy
- Laboratory of Wildlife Ecology and Behaviour, School of Biology and Environmental Science, University College Dublin, Dublin, Ireland
| | - Simone Ciuti
- Laboratory of Wildlife Ecology and Behaviour, School of Biology and Environmental Science, University College Dublin, Dublin, Ireland
| | - Tim Burkitt
- Deer Management Solutions, Coolies, Muckross, Killarney, Ireland
| | - Virginia Morera-Pujol
- Laboratory of Wildlife Ecology and Behaviour, School of Biology and Environmental Science, University College Dublin, Dublin, Ireland
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Kühl HS, Buckland ST, Henrich M, Howe E, Heurich M. Estimating effective survey duration in camera trap distance sampling surveys. Ecol Evol 2023; 13:e10599. [PMID: 37841220 PMCID: PMC10571013 DOI: 10.1002/ece3.10599] [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: 03/08/2023] [Revised: 07/03/2023] [Accepted: 09/04/2023] [Indexed: 10/17/2023] Open
Abstract
Among other approaches, camera trap distance sampling (CTDS) is used to estimate animal abundance from unmarked populations. It was formulated for videos and observation distances are measured at predetermined 'snapshot moments'. Surveys recording still images with passive infrared motion sensors suffer from frequent periods where animals are not photographed, either because of technical delays before the camera can be triggered again (i.e. 'camera recovery time') or because they remain stationary and do not immediately retrigger the camera following camera recovery time (i.e. 'retrigger delays'). These effects need to be considered when calculating temporal survey effort to avoid downwardly biased abundance estimates. Here, we extend the CTDS model for passive infrared motion sensor recording of single images or short photo series. We propose estimating 'mean time intervals between triggers' as combined mean camera recovery time and mean retrigger delays from the time interval distribution of pairs of consecutive pictures, using a Gamma and Exponential function, respectively. We apply the approach to survey data on red deer, roe deer and wild boar. Mean time intervals between triggers were very similar when estimated empirically and when derived from the model-based approach. Depending on truncation times (i.e. the time interval between consecutive pictures beyond which data are discarded) and species, we estimated mean time intervals between retriggers between 8.28 and 15.05 s. Using a predefined snapshot interval, not accounting for these intervals, would lead to underestimated density by up to 96% due to overestimated temporal survey effort. The proposed approach is applicable to any taxa surveyed with camera traps. As programming of cameras to record still images is often preferred over video recording due to reduced consumption of energy and memory, we expect this approach to find broad application, also for other camera trap methods than CTDS.
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Affiliation(s)
- Hjalmar S. Kühl
- Senckenberg Museum for Natural History GörlitzSenckenberg – Member of the Leibniz AssociationGörlitzGermany
- International Institute Zittau, Technische Universität DresdenZittauGermany
- German Centre for Integrative Biodiversity Research (iDiv) Halle‐Jena‐LeipzigLeipzigGermany
| | - Stephen T. Buckland
- Centre for Research into Ecological and Environmental ModellingUniversity of St Andrews, The ObservatorySt AndrewsUK
| | - Maik Henrich
- Department of National Park Monitoring and Animal ManagementBavarian Forest National ParkGrafenauGermany
- Faculty of Environment and Natural ResourcesAlbert Ludwigs University of FreiburgFreiburgGermany
| | - Eric Howe
- Wildlife Research and Monitoring SectionOntario Ministry of Natural Resources and ForestryPeterboroughOntarioCanada
| | - Marco Heurich
- Department of National Park Monitoring and Animal ManagementBavarian Forest National ParkGrafenauGermany
- Faculty of Environment and Natural ResourcesAlbert Ludwigs University of FreiburgFreiburgGermany
- Institute for Forest and Wildlife ManagementInland Norway University of Applied ScienceKoppangNorway
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14
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Pincheira-Ulbrich J. Exploring the vegetation of the coastal road in Puerto Cisnes, southern Chile: a vascular plant inventory. Biodivers Data J 2023; 11:e107217. [PMID: 37649736 PMCID: PMC10463178 DOI: 10.3897/bdj.11.e107217] [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: 05/30/2023] [Accepted: 08/13/2023] [Indexed: 09/01/2023] Open
Abstract
Background In areas of low disturbance, such as the Aysén Region of Chile, the presence of roads can inadvertently facilitate the spread of invasive species. To address this issue, it is imperative to maintain up-to-date biological inventories, as they serve as a primary source of information for the conservation of species and ecosystems. However, the maintenance of systematic inventories of vascular plants in Chile is virtually non-existent, especially outside protected wilderness areas. The data we have come from an inventory of vascular plant species along a stretch of coastal road in Puerto Cisnes (Aysén Region), characterised by a cut slope in the rock. The site is located between mountain ranges, in a region known for its protected wilderness areas and low levels of anthropogenic alteration. The study adopted an observational sampling design, using the road as a transect. For each species identified, the growth substrate, habit and dispersal mode were recorded. A total of 70 species (36 herbs, 23 shrubs and 11 trees) belonging to 42 families were found. The most represented families were Hymenophyllaceae (nine species) and Myrtaceae (four species). We recorded nine introduced species belonging to seven botanical families (Cirsiumvulgare (Savi) Ten., Crocosmiacrocosmiiflora (Lemoine ex Burb. & Dean) N.E.Br., Cytisusscoparius (L.) Link, Digitalispurpurea L., Lotuspedunculatus Cav., Plantagolanceolata L., Polygonumcampanulatum Hook. f., Prunellavulgaris L., Rubusconstrictus Lefèvre & P.J.Müll). Of these nine species, seven are invasive, while the remaining two species have not been assessed for invasive potential (i.e. Crocosmiacrocosmiiflora and Polygonumcampanulatum). In particular, Crocosmiacrocosmiiflora and Rubusconstrictus are new regional records. The majority of species were found growing on the ground (44 species), while a significant proportion were found exclusively on rocky slopes (17 species). According to their seed dispersal mechanism, the most common syndromes were anemochory (32 species) and ornithochory (20 species). Other mechanisms such as mammalochory, ballochory or myrmecochory were less common (less than four species). New information This study provides valuable data on the vascular flora of Puerto Cisnes, Chile, a modest human settlement in a minimally altered landscape. The region, dominated by native forests and a burgeoning salmon farming industry, has few inventories, so the database presented here adds significantly to local botanical knowledge. The main novelty of this research is that it is the first inventory carried out on a road in a slightly altered area surrounded by protected wilderness areas (such as Magdalena Island National Park and Queulat National Park). The study systematically categorises species according to substrate, habitat and dispersal mode, dimensions that are rarely combined in a single database.The inventory identifies 70 species (36 herbs, 23 shrubs and 11 trees) in 42 families. The most represented families were Hymenophyllaceae (with nine species) and Myrtaceae (with four species). Additionally, we recorded, two introduced species (Crocosmiacrocosmiiflora and Rubusconstrictus) at least 100 km south of their known distribution.
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Affiliation(s)
- Jimmy Pincheira-Ulbrich
- Departamento de Ciencias Ambientales, Facultad de Recursos Naturales, Universidad Católica de Temuco. Rudecindo Ortega 02950, Temuco, ChileDepartamento de Ciencias Ambientales, Facultad de Recursos Naturales, Universidad Católica de Temuco. Rudecindo Ortega 02950TemucoChile
- Núcleo de Estudios Ambientales, Universidad Católica de Temuco, Temuco, ChileNúcleo de Estudios Ambientales, Universidad Católica de TemucoTemucoChile
- Laboratorio de Planificación Territorial, Universidad Católica de Temuco, Temuco, ChileLaboratorio de Planificación Territorial, Universidad Católica de TemucoTemucoChile
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15
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Ledger SEH, Loh J, Almond R, Böhm M, Clements CF, Currie J, Deinet S, Galewski T, Grooten M, Jenkins M, Marconi V, Painter B, Scott-Gatty K, Young L, Hoffmann M, Freeman R, McRae L. Past, present, and future of the Living Planet Index. NPJ BIODIVERSITY 2023; 2:12. [PMID: 39242663 PMCID: PMC11332142 DOI: 10.1038/s44185-023-00017-3] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/08/2022] [Accepted: 05/05/2023] [Indexed: 09/09/2024]
Abstract
As we enter the next phase of international policy commitments to halt biodiversity loss (e.g., Kunming-Montreal Global Biodiversity Framework), biodiversity indicators will play an important role in forming the robust basis upon which targeted, and time sensitive conservation actions are developed. Population trend indicators are one of the most powerful tools in biodiversity monitoring due to their responsiveness to changes over short timescales and their ability to aggregate species trends from global down to sub-national or even local scale. We consider how the project behind one of the foremost population level indicators - the Living Planet Index - has evolved over the last 25 years, its value to the field of biodiversity monitoring, and how its components have portrayed a compelling account of the changing status of global biodiversity through its application at policy, research and practice levels. We explore ways the project can develop to enhance our understanding of the state of biodiversity and share lessons learned to inform indicator development and mobilise action.
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Affiliation(s)
- Sophie E H Ledger
- Institute of Zoology, Zoological Society of London (ZSL), London, UK.
| | - Jonathan Loh
- School of Anthropology and Conservation, University of Kent, Canterbury, UK
| | - Rosamunde Almond
- WWF Netherlands - World Wide Fund for Nature, Zeist, Netherlands
| | - Monika Böhm
- Global Center for Species Survival, Indianapolis Zoo, Indianapolis, USA
| | | | - Jessica Currie
- WWF Canada - World Wildlife Fund Canada, Toronto, Canada
| | - Stefanie Deinet
- Institute of Zoology, Zoological Society of London (ZSL), London, UK
| | - Thomas Galewski
- Institut de recherche pour la conservation des zones humides méditerranéennes, Tour du Valat, Arles, France
| | - Monique Grooten
- WWF Netherlands - World Wide Fund for Nature, Zeist, Netherlands
| | | | - Valentina Marconi
- Institute of Zoology, Zoological Society of London (ZSL), London, UK
| | - Brett Painter
- Environment and Climate Change Canada (ECCC), Government of Canada, Gatineau, Canada
| | - Kate Scott-Gatty
- Institute of Zoology, Zoological Society of London (ZSL), London, UK
| | - Lucy Young
- WWF UK - World Wide Fund for Nature, Woking, UK
| | - Michael Hoffmann
- Conservation and Policy, Zoological Society of London (ZSL), London, UK
| | - Robin Freeman
- Institute of Zoology, Zoological Society of London (ZSL), London, UK
| | - Louise McRae
- Institute of Zoology, Zoological Society of London (ZSL), London, UK.
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16
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Polansky L, Mitchell L, Newman KB. Combining multiple data sources with different biases in state-space models for population dynamics. Ecol Evol 2023; 13:e10154. [PMID: 37304369 PMCID: PMC10249046 DOI: 10.1002/ece3.10154] [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: 02/14/2023] [Accepted: 05/23/2023] [Indexed: 06/13/2023] Open
Abstract
The resolution at which animal populations can be modeled can be increased when multiple datasets corresponding to different life stages are available, allowing, for example, seasonal instead of annual descriptions of dynamics. However, the abundance estimates used for model fitting can have multiple sources of error, both random and systematic, namely bias. We focus here on the consequences of, and how to address, differing and unknown observation biases when fitting models.State-space models (SSMs) separate process variation and observation error, thus providing a framework to account for different and unknown estimate biases across multiple datasets. Here we study the effects on the inference of including or excluding bias parameters for a sequential life stage population dynamics SSM using a combination of theory, simulation experiments, and an empirical example.When the data, that is, abundance estimates, are unbiased, including bias parameters leads to increased imprecision compared to a model that correctly excludes bias parameters. But when observations are biased and no bias parameters are estimated, recruitment and survival processes are inaccurately estimated and estimates of process variance become biased high. These problems are substantially reduced by including bias parameters and fixing one of them at even an incorrect value. The primary inferential challenge is that models with bias parameters can show properties of being parameter redundant even when they are not in theory.Combining multiple datasets into a single analysis by using bias parameters to rescale data can offer significant improvements to inference and model diagnostics. Because their estimability in practice is dataset specific and will likely require more precise estimates than might be expected from ecological datasets, we outline some strategies for characterizing process uncertainty when it is confounded by bias parameters.
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Affiliation(s)
- Leo Polansky
- U.S. Fish and Wildlife ServiceSacramentoCaliforniaUSA
| | | | - Ken B. Newman
- School of MathematicsUniversity of EdinburghEdinburghUK
- Biomathematics and Statistics ScotlandEdinburghUK
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17
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Boyse E, Beger M, Valsecchi E, Goodman SJ. Sampling from commercial vessel routes can capture marine biodiversity distributions effectively. Ecol Evol 2023; 13:e9810. [PMID: 36789340 PMCID: PMC9919487 DOI: 10.1002/ece3.9810] [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: 08/26/2022] [Revised: 01/20/2023] [Accepted: 01/24/2023] [Indexed: 02/13/2023] Open
Abstract
Collecting fine-scale occurrence data for marine species across large spatial scales is logistically challenging but is important to determine species distributions and for conservation planning. Inaccurate descriptions of species ranges could result in designating protected areas with inappropriate locations or boundaries. Optimizing sampling strategies therefore is a priority for scaling up survey approaches using tools such as environmental DNA (eDNA) to capture species distributions. In a marine context, commercial vessels, such as ferries, could provide sampling platforms allowing access to undersampled areas and repeatable sampling over time to track community changes. However, sample collection from commercial vessels could be biased and may not represent biological and environmental variability. Here, we evaluate whether sampling along Mediterranean ferry routes can yield unbiased biodiversity survey outcomes, based on perfect knowledge from a stacked species distribution model (SSDM) of marine megafauna derived from online data repositories. Simulations to allocate sampling point locations were carried out representing different sampling strategies (random vs regular), frames (ferry routes vs unconstrained), and number of sampling points. SSDMs were remade from different sampling simulations and compared with the "perfect knowledge" SSDM to quantify the bias associated with different sampling strategies. Ferry routes detected more species and were able to recover known patterns in species richness at smaller sample sizes better than unconstrained sampling points. However, to minimize potential bias, ferry routes should be chosen to cover the variability in species composition and its environmental predictors in the SSDMs. The workflow presented here can be used to design effective sampling strategies using commercial vessel routes globally for eDNA and other biodiversity survey techniques. This approach has potential to provide a cost-effective method to access remote oceanic areas on a regular basis and can recover meaningful data on spatiotemporal biodiversity patterns.
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Affiliation(s)
| | | | - Elena Valsecchi
- Department of Environmental and Earth SciencesUniversity of Milano‐BicoccaMilanItaly
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O'Donnell MS, Edmunds DR, Aldridge CL, Heinrichs JA, Monroe AP, Coates PS, Prochazka BG, Hanser SE, Wiechman LA. Defining biologically relevant and hierarchically nested population units to inform wildlife management. Ecol Evol 2022; 12:e9565. [PMID: 36466138 PMCID: PMC9712811 DOI: 10.1002/ece3.9565] [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: 06/01/2022] [Revised: 10/29/2022] [Accepted: 11/11/2022] [Indexed: 12/05/2022] Open
Abstract
Wildlife populations are increasingly affected by natural and anthropogenic changes that negatively alter biotic and abiotic processes at multiple spatiotemporal scales and therefore require increased wildlife management and conservation efforts. However, wildlife management boundaries frequently lack biological context and mechanisms to assess demographic data across the multiple spatiotemporal scales influencing populations. To address these limitations, we developed a novel approach to define biologically relevant subpopulations of hierarchically nested population levels that could facilitate managing and conserving wildlife populations and habitats. Our approach relied on the Spatial "K"luster Analysis by Tree Edge Removal clustering algorithm, which we applied in an agglomerative manner (bottom-to-top). We modified the clustering algorithm using a workflow and population structure tiers from least-cost paths, which captured biological inferences of habitat conditions (functional connectivity), dispersal capabilities (potential connectivity), genetic information, and functional processes affecting movements. The approach uniquely included context of habitat resources (biotic and abiotic) summarized at multiple spatial scales surrounding locations with breeding site fidelity and constraint-based rules (number of sites grouped and population structure tiers). We applied our approach to greater sage-grouse (Centrocercus urophasianus), a species of conservation concern, across their range within the western United States. This case study produced 13 hierarchically nested population levels (akin to cluster levels, each representing a collection of subpopulations of an increasing number of breeding sites). These closely approximated population closure at finer ecological scales (smaller subpopulation extents with fewer breeding sites; cluster levels ≥2), where >92% of individual sage-grouse's time occurred within their home cluster. With available population monitoring data, our approaches can support the investigation of factors affecting population dynamics at multiple scales and assist managers with making informed, targeted, and cost-effective decisions within an adaptive management framework. Importantly, our approach provides the flexibility of including species-relevant context, thereby supporting other wildlife characterized by site fidelity.
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Affiliation(s)
| | - David R. Edmunds
- U.S. Geological SurveyFort Collins Science CenterFort CollinsColoradoUSA
| | | | - Julie A. Heinrichs
- Natural Resource Ecology Laboratory, U.S. Geological Survey, Fort Collins Science CenterColorado State UniversityFort CollinsColoradoUSA
| | - Adrian P. Monroe
- U.S. Geological SurveyFort Collins Science CenterFort CollinsColoradoUSA
| | - Peter S. Coates
- U.S. Geological SurveyWestern Ecological Research CenterDixonCaliforniaUSA
| | - Brian G. Prochazka
- U.S. Geological SurveyWestern Ecological Research CenterDixonCaliforniaUSA
| | - Steve E. Hanser
- U.S. Geological SurveyFort Collins Science CenterFort CollinsColoradoUSA
| | - Lief A. Wiechman
- U.S. Geological SurveyEcosystems Mission AreaFort CollinsColoradoUSA
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19
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Measuring the Impact of Conservation: The Growing Importance of Monitoring Fauna, Flora and Funga. DIVERSITY 2022. [DOI: 10.3390/d14100824] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Abstract
Many stakeholders, from governments to civil society to businesses, lack the data they need to make informed decisions on biodiversity, jeopardising efforts to conserve, restore and sustainably manage nature. Here we review the importance of enhancing biodiversity monitoring, assess the challenges involved and identify potential solutions. Capacity for biodiversity monitoring needs to be enhanced urgently, especially in poorer, high-biodiversity countries where data gaps are disproportionately high. Modern tools and technologies, including remote sensing, bioacoustics and environmental DNA, should be used at larger scales to fill taxonomic and geographic data gaps, especially in the tropics, in marine and freshwater biomes, and for plants, fungi and invertebrates. Stakeholders need to follow best monitoring practices, adopting appropriate indicators and using counterfactual approaches to measure and attribute outcomes and impacts. Data should be made openly and freely available. Companies need to invest in collecting the data required to enhance sustainability in their operations and supply chains. With governments soon to commit to the post-2020 global biodiversity framework, the time is right to make a concerted push on monitoring. However, action at scale is needed now if we are to enhance results-based management adequately to conserve the biodiversity and ecosystem services we all depend on.
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20
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Burns F, Eaton MA, Burfield IJ, Klvaňová A, Šilarová E, Staneva A, Gregory RD. Abundance decline in the avifauna of the European Union reveals cross-continental similarities in biodiversity change. Ecol Evol 2021; 11:16647-16660. [PMID: 34938463 PMCID: PMC8668816 DOI: 10.1002/ece3.8282] [Citation(s) in RCA: 42] [Impact Index Per Article: 10.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2021] [Revised: 10/04/2021] [Accepted: 10/07/2021] [Indexed: 01/09/2023] Open
Abstract
Although global assessments provide evidence of biodiversity decline, some have questioned the strength of the evidence, with local assemblage studies often showing a more balanced picture of biodiversity change. The multifaceted nature of biodiversity and imperfect monitoring datasets may partially explain these findings. Here, using an extensive dataset, we find significant biodiversity loss in the native avifauna of the European Union (EU). We estimate a decline of 17-19% in the overall breeding bird abundance since 1980: a loss of 560-620 million individual birds. Both total and proportional declines in bird numbers are high among species associated with agricultural land. The distribution of species' population growth rates (ln) is centered close to zero, with numerical decline driven by substantial losses in abundant species. Our work supports previous assessments indicating substantial recent biodiversity loss and calls to reduce the threat of extinctions and restore species' abundances, for the sake of nature and people.
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Affiliation(s)
- Fiona Burns
- RSPB Centre for Conservation ScienceCambridgeUK
| | | | | | | | - Eva Šilarová
- Czech Society for OrnithologyPragueCzech Republic
| | | | - Richard D. Gregory
- RSPB Centre for Conservation ScienceSandyUK
- Department of Genetics, Evolution and EnvironmentCentre for Biodiversity & Environment ResearchUniversity College LondonLondonUK
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21
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Darras KFA, Yusti E, Huang JC, Zemp D, Kartono AP, Wanger TC. Bat point counts: A novel sampling method shines light on flying bat communities. Ecol Evol 2021; 11:17179-17190. [PMID: 34938501 PMCID: PMC8668732 DOI: 10.1002/ece3.8356] [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] [Received: 07/14/2021] [Revised: 09/14/2021] [Accepted: 10/18/2021] [Indexed: 11/14/2022] Open
Abstract
Emerging technologies based on the detection of electro-magnetic energy offer promising opportunities for sampling biodiversity. We exploit their potential by showing here how they can be used in bat point counts-a novel method to sample flying bats-to overcome shortcomings of traditional sampling methods, and to maximize sampling coverage and taxonomic resolution of this elusive taxon with minimal sampling bias. We conducted bat point counts with a sampling rig combining a thermal scope to detect bats, an ultrasound recorder to obtain echolocation calls, and a near-infrared camera to capture bat morphology. We identified bats with a dedicated identification key combining acoustic and morphological features, and compared bat point counts with the standard bat sampling methods of mist-netting and automated ultrasound recording in three oil palm plantation sites in Indonesia, over nine survey nights. Based on rarefaction and extrapolation sampling curves, bat point counts were similarly effective but more time-efficient than the established methods for sampling the oil palm species pool in our study. Point counts sampled species that tend to avoid nets and those that are not echolocating, and thus cannot be detected acoustically. We identified some bat sonotypes with near-infrared imagery, and bat point counts revealed strong sampling biases in previous studies using capture-based methods, suggesting similar biases in other regions might exist. Our method should be tested in a wider range of habitats and regions to assess its performance. However, while capture-based methods allow to identify bats with absolute and internal morphometry, and unattended ultrasound recorders can effectively sample echolocating bats, bat point counts are a promising, non-invasive, and potentially competitive new tool for sampling all flying bats without bias and observing their behavior in the wild.
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Affiliation(s)
- Kevin Felix Arno Darras
- AgroecologyDepartment of Crop SciencesUniversity of GöttingenGöttingenGermany
- Sustainable Agriculture & Technology LabSchool of EngineeringWestlake UniversityHangzhouChina
| | | | | | - Delphine‐Clara Zemp
- Biodiversity, Macroecology and BiogeographyUniversity of GöttingenGöttingenGermany
- Laboratory of Conservation BiologyInstitute of BiologyUniversity of NeuchâtelNeuchâtelSwitzerland
| | - Agus Priyono Kartono
- Department of Forest Resources Conservation and EcotourismFaculty of ForestryIPB UniversityBogorIndonesia
| | - Thomas Cherico Wanger
- Sustainable Agriculture & Technology LabSchool of EngineeringWestlake UniversityHangzhouChina
- Key Laboratory of Coastal Environment and Resources of Zhejiang ProvinceWestlake UniversityHangzhouChina
- GlobalAgroforestryNetwork.orgChina
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22
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Cardoso B, García-Bocanegra I, Acevedo P, Cáceres G, Alves PC, Gortázar C. Stepping up from wildlife disease surveillance to integrated wildlife monitoring in Europe. Res Vet Sci 2021; 144:149-156. [PMID: 34815105 DOI: 10.1016/j.rvsc.2021.11.003] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2021] [Revised: 10/29/2021] [Accepted: 11/02/2021] [Indexed: 11/17/2022]
Abstract
In a context of disease emergence and faced with the ever-growing evidence of the role of wildlife in the epidemiology of transmissible diseases, efforts have been made to develop wildlife disease surveillance (WDS) programs throughout Europe. Disease monitoring is ideally composed of "numerator data" (number of infected individuals) and "denominator data" (size of the target population). Too often however, information is available for only one. Hence, there is a need for developing integrated and harmonized disease and population monitoring tools for wildlife: integrated wildlife monitoring (IWM). IWM should have three components. Passive disease surveillance improves the likelihood of early detection of emerging diseases, while active surveillance and population monitoring are required to assess epidemiological dynamics, freedom of disease, and the outcome of interventions. Here, we review the characteristics of ongoing WDS in Europe, observe how pathogens have been ranked, and note a need for ranking host species, too. Then, we list the challenges for WDS and draw a roadmap for stepping up from WDS to IWM. There is a need to integrate and maintain an equilibrium between the three components of IWM, improve data collection and accessibility, and guarantee the adaptability of these schemes to each epidemiological context and temporal period. Methodological harmonization and centralization of information at a European level would increase efficiency of national programs and improve the follow-up of eventual interventions. The ideal IWM would integrate capacities from different stakeholder; allow to rapidly incorporate relevant new knowledge; and rely on stable capacities and funding.
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Affiliation(s)
- Beatriz Cardoso
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, 4485-661 Vairão, Portugal; IREC, Instituto de Investigación en Recursos Cinegéticos, UCLM-CSIC-JCCM, Ronda Toledo 12, 13071 Ciudad Real, Spain; Departamento de Biologia, Faculdade de Ciências, Universidade do Porto, 4099-002 Porto, Portugal; BIOPOLIS, Program in Genomics, Biodiversity and Land Planning, CIBIO, Campus de Vairão, 4485-661 Vairão, Portugal.
| | - Ignacio García-Bocanegra
- GISAZ, Grupo de Investigación en Sanidad Animal y Zoonosis, Departamento de Sanidad Animal, Universidad de Córdoba, 14014 Córdoba, Spain
| | - Pelayo Acevedo
- IREC, Instituto de Investigación en Recursos Cinegéticos, UCLM-CSIC-JCCM, Ronda Toledo 12, 13071 Ciudad Real, Spain
| | - Germán Cáceres
- Departamento de Epidemiologia, Ministerio de Agricultura, Pesca y Alimentación, 28014 Madrid, Spain
| | - Paulo C Alves
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, 4485-661 Vairão, Portugal; Departamento de Biologia, Faculdade de Ciências, Universidade do Porto, 4099-002 Porto, Portugal; BIOPOLIS, Program in Genomics, Biodiversity and Land Planning, CIBIO, Campus de Vairão, 4485-661 Vairão, Portugal
| | - Christian Gortázar
- IREC, Instituto de Investigación en Recursos Cinegéticos, UCLM-CSIC-JCCM, Ronda Toledo 12, 13071 Ciudad Real, Spain
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23
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Eicken H, Danielsen F, Sam JM, Fidel M, Johnson N, Poulsen MK, Lee OA, Spellman KV, Iversen L, Pulsifer P, Enghoff M. Connecting Top-Down and Bottom-Up Approaches in Environmental Observing. Bioscience 2021; 71:467-483. [PMID: 33986631 PMCID: PMC8106998 DOI: 10.1093/biosci/biab018] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023] Open
Abstract
Effective responses to rapid environmental change rely on observations to inform planning and decision-making. Reviewing literature from 124 programs across the globe and analyzing survey data for 30 Arctic community-based monitoring programs, we compare top-down, large-scale program driven approaches with bottom-up approaches initiated and steered at the community level. Connecting these two approaches and linking to Indigenous and local knowledge yields benefits including improved information products and enhanced observing program efficiency and sustainability. We identify core principles central to such improved links: matching observing program aims, scales, and ability to act on information; matching observing program and community priorities; fostering compatibility in observing methodology and data management; respect of Indigenous intellectual property rights and the implementation of free, prior, and informed consent; creating sufficient organizational support structures; and ensuring sustained community members’ commitment. Interventions to overcome challenges in adhering to these principles are discussed.
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Affiliation(s)
- Hajo Eicken
- University of Alaska Fairbanks, Fairbanks, Alaska, United States
| | - Finn Danielsen
- University of Alaska Fairbanks, Fairbanks, Alaska, United States
| | | | - Maryann Fidel
- Yukon River Inter-Tribal Watershed Council, Anchorage, Alaska, United States
| | - Noor Johnson
- University of Colorado, Boulder, Boulder, Colorado, United States
| | | | - Olivia A Lee
- University of Alaska Fairbanks, Fairbanks, Alaska, United States
| | - Katie V Spellman
- University of Alaska Fairbanks, Fairbanks, Alaska, United States
| | - Lisbeth Iversen
- Nansen Environmental and Remote Sensing Center, Bergen, Norway
| | | | - Martin Enghoff
- University of Alaska Fairbanks, Fairbanks, Alaska, United States
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24
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Sánchez-Clavijo LM, Martínez-Callejas SJ, Acevedo-Charry O, Diaz-Pulido A, Gómez-Valencia B, Ocampo-Peñuela N, Ocampo D, Olaya-Rodríguez MH, Rey-Velasco JC, Soto-Vargas C, Ochoa-Quintero JM. Differential reporting of biodiversity in two citizen science platforms during COVID-19 lockdown in Colombia. BIOLOGICAL CONSERVATION 2021; 256:109077. [PMID: 35702146 PMCID: PMC9186113 DOI: 10.1016/j.biocon.2021.109077] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/21/2020] [Revised: 03/04/2021] [Accepted: 03/10/2021] [Indexed: 05/26/2023]
Abstract
The COVID-19 pandemic highlighted the potential of using data from long-term citizen science projects to answer questions about the impacts of unexpected events on biodiversity. We evaluate the suitability of data from the citizen science platforms iNaturalist and eBird to describe the effects of the "anthropause" on biodiversity observation in Colombia. We compared record distribution according to human footprint, sampling behaviors, overall and conservation priority species composition during the strictest phase of the COVID-19 lockdown in 2020 to the same periods in 2015-2019. Overall participation in both platforms during the lockdown was high when compared to previous years, but records were concentrated on highly-transformed regions, had lower sampling efforts, and fewer species were recorded. For eBird, species composition was similar to that observed in previous years, and records of species of conservation concern declined in proportion to the decrease in overall species richness across samples. For iNaturalist, the species pool sampled each year remained too dissimilar for comparisons. Once differences in observer behaviors are accounted for, data from these platforms can be used in unplanned comparisons of relatively common species, in regions with high levels of human transformation, and at narrowly defined geographical contexts. To increase the potential of citizen science to monitor rarer species, more natural areas, or be used in large-scale analyses, we need to build and strengthen more diverse networks of observers that can further promote decentralization, democratization, and cost-effectiveness in biodiversity research.
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Affiliation(s)
| | | | - Orlando Acevedo-Charry
- Instituto de Investigación de Recursos Biológicos Alexander von Humboldt, Bogotá, Colombia
| | - Angélica Diaz-Pulido
- Instituto de Investigación de Recursos Biológicos Alexander von Humboldt, Bogotá, Colombia
| | - Bibiana Gómez-Valencia
- Instituto de Investigación de Recursos Biológicos Alexander von Humboldt, Bogotá, Colombia
| | - Natalia Ocampo-Peñuela
- Instituto de Investigación de Recursos Biológicos Alexander von Humboldt, Bogotá, Colombia
| | - David Ocampo
- Instituto de Investigación de Recursos Biológicos Alexander von Humboldt, Bogotá, Colombia
| | | | | | - Carolina Soto-Vargas
- Instituto de Investigación de Recursos Biológicos Alexander von Humboldt, Bogotá, Colombia
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