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Nathan R, Monk CT, Arlinghaus R, Adam T, Alós J, Assaf M, Baktoft H, Beardsworth CE, Bertram MG, Bijleveld AI, Brodin T, Brooks JL, Campos-Candela A, Cooke SJ, Gjelland KØ, Gupte PR, Harel R, Hellström G, Jeltsch F, Killen SS, Klefoth T, Langrock R, Lennox RJ, Lourie E, Madden JR, Orchan Y, Pauwels IS, Říha M, Roeleke M, Schlägel UE, Shohami D, Signer J, Toledo S, Vilk O, Westrelin S, Whiteside MA, Jarić I. Big-data approaches lead to an increased understanding of the ecology of animal movement. Science 2022; 375:eabg1780. [PMID: 35175823 DOI: 10.1126/science.abg1780] [Citation(s) in RCA: 101] [Impact Index Per Article: 50.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
Understanding animal movement is essential to elucidate how animals interact, survive, and thrive in a changing world. Recent technological advances in data collection and management have transformed our understanding of animal "movement ecology" (the integrated study of organismal movement), creating a big-data discipline that benefits from rapid, cost-effective generation of large amounts of data on movements of animals in the wild. These high-throughput wildlife tracking systems now allow more thorough investigation of variation among individuals and species across space and time, the nature of biological interactions, and behavioral responses to the environment. Movement ecology is rapidly expanding scientific frontiers through large interdisciplinary and collaborative frameworks, providing improved opportunities for conservation and insights into the movements of wild animals, and their causes and consequences.
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Affiliation(s)
- Ran Nathan
- Movement Ecology Lab, A. Silberman Institute of Life Sciences, Edmond J. Safra Campus, The Hebrew University of Jerusalem, Jerusalem, Israel.,Minerva Center for Movement Ecology, The Hebrew University of Jerusalem, Jerusalem, Israel
| | - Christopher T Monk
- Institute of Marine Research, His, Norway.,Centre for Coastal Research (CCR), Department of Natural Sciences, University of Agder, Kristiansand, Norway.,Department of Fish Biology, Fisheries and Aquaculture, Leibniz Institute of Freshwater Ecology and Inland Fisheries, Berlin, Germany
| | - Robert Arlinghaus
- Department of Fish Biology, Fisheries and Aquaculture, Leibniz Institute of Freshwater Ecology and Inland Fisheries, Berlin, Germany.,Division of Integrative Fisheries Management, Faculty of Life Sciences and Integrative Research Institute on Transformations of Human-Environment Systems (IRI THESys), Humboldt-Universität zu Berlin, Berlin, Germany
| | - Timo Adam
- Centre for Research into Ecological and Environmental Modelling, School of Mathematics and Statistics, University of St Andrews, St Andrews, UK
| | - Josep Alós
- Instituto Mediterráneo de Estudios Avanzados, IMEDEA (CSIC-UIB), Esporles, Spain
| | - Michael Assaf
- Racah Institute of Physics, Edmond J. Safra Campus, The Hebrew University of Jerusalem, Jerusalem, Israel
| | - Henrik Baktoft
- National Institute of Aquatic Resources, Section for Freshwater Fisheries and Ecology, Technical University of Denmark, Silkeborg, Denmark
| | - Christine E Beardsworth
- NIOZ Royal Netherlands Institute for Sea Research, Department of Coastal Systems, Den Burg, The Netherlands.,Centre for Research in Animal Behaviour, Psychology, University of Exeter, Exeter, UK
| | - Michael G Bertram
- Department of Wildlife, Fish, and Environmental Studies, Swedish University of Agricultural Sciences, Umeå, Sweden
| | - Allert I Bijleveld
- NIOZ Royal Netherlands Institute for Sea Research, Department of Coastal Systems, Den Burg, The Netherlands
| | - Tomas Brodin
- Department of Wildlife, Fish, and Environmental Studies, Swedish University of Agricultural Sciences, Umeå, Sweden
| | - Jill L Brooks
- Fish Ecology and Conservation Physiology Laboratory, Department of Biology, Carleton University, Ottawa, ON, Canada
| | - Andrea Campos-Candela
- Department of Fish Biology, Fisheries and Aquaculture, Leibniz Institute of Freshwater Ecology and Inland Fisheries, Berlin, Germany.,Instituto Mediterráneo de Estudios Avanzados, IMEDEA (CSIC-UIB), Esporles, Spain
| | - Steven J Cooke
- Fish Ecology and Conservation Physiology Laboratory, Department of Biology, Carleton University, Ottawa, ON, Canada
| | | | - Pratik R Gupte
- NIOZ Royal Netherlands Institute for Sea Research, Department of Coastal Systems, Den Burg, The Netherlands.,Groningen Institute for Evolutionary Life Sciences, University of Groningen, Groningen, The Netherlands
| | - Roi Harel
- Movement Ecology Lab, A. Silberman Institute of Life Sciences, Edmond J. Safra Campus, The Hebrew University of Jerusalem, Jerusalem, Israel.,Minerva Center for Movement Ecology, The Hebrew University of Jerusalem, Jerusalem, Israel
| | - Gustav Hellström
- Department of Wildlife, Fish, and Environmental Studies, Swedish University of Agricultural Sciences, Umeå, Sweden
| | - Florian Jeltsch
- Plant Ecology and Nature Conservation, Institute of Biochemistry and Biology, University of Potsdam, Potsdam, Germany.,Berlin-Brandenburg Institute of Advanced Biodiversity Research (BBIB), Berlin, Germany
| | - Shaun S Killen
- Institute of Biodiversity, Animal Health and Comparative Medicine, University of Glasgow, Glasgow UK
| | - Thomas Klefoth
- Ecology and Conservation, Faculty of Nature and Engineering, Hochschule Bremen, City University of Applied Sciences, Bremen, Germany
| | - Roland Langrock
- Department of Business Administration and Economics, Bielefeld University, Bielefeld, Germany
| | - Robert J Lennox
- NORCE Norwegian Research Centre, Laboratory for Freshwater Ecology and Inland Fisheries, Bergen, Norway
| | - Emmanuel Lourie
- Movement Ecology Lab, A. Silberman Institute of Life Sciences, Edmond J. Safra Campus, The Hebrew University of Jerusalem, Jerusalem, Israel.,Minerva Center for Movement Ecology, The Hebrew University of Jerusalem, Jerusalem, Israel
| | - Joah R Madden
- Centre for Research in Animal Behaviour, Psychology, University of Exeter, Exeter, UK
| | - Yotam Orchan
- Movement Ecology Lab, A. Silberman Institute of Life Sciences, Edmond J. Safra Campus, The Hebrew University of Jerusalem, Jerusalem, Israel.,Minerva Center for Movement Ecology, The Hebrew University of Jerusalem, Jerusalem, Israel
| | - Ine S Pauwels
- Research Institute for Nature and Forest (INBO), Brussels, Belgium
| | - Milan Říha
- Biology Centre of the Czech Academy of Sciences, Institute of Hydrobiology, České Budějovice, Czech Republic
| | - Manuel Roeleke
- Plant Ecology and Nature Conservation, Institute of Biochemistry and Biology, University of Potsdam, Potsdam, Germany
| | - Ulrike E Schlägel
- Plant Ecology and Nature Conservation, Institute of Biochemistry and Biology, University of Potsdam, Potsdam, Germany
| | - David Shohami
- Movement Ecology Lab, A. Silberman Institute of Life Sciences, Edmond J. Safra Campus, The Hebrew University of Jerusalem, Jerusalem, Israel.,Minerva Center for Movement Ecology, The Hebrew University of Jerusalem, Jerusalem, Israel
| | - Johannes Signer
- Wildlife Sciences, Faculty of Forest Sciences and Forest Ecology, University of Goettingen, Göttingen, Germany
| | - Sivan Toledo
- Minerva Center for Movement Ecology, The Hebrew University of Jerusalem, Jerusalem, Israel.,Blavatnik School of Computer Science, Tel-Aviv University, Tel-Aviv, Israel
| | - Ohad Vilk
- Movement Ecology Lab, A. Silberman Institute of Life Sciences, Edmond J. Safra Campus, The Hebrew University of Jerusalem, Jerusalem, Israel.,Minerva Center for Movement Ecology, The Hebrew University of Jerusalem, Jerusalem, Israel.,Racah Institute of Physics, Edmond J. Safra Campus, The Hebrew University of Jerusalem, Jerusalem, Israel
| | - Samuel Westrelin
- INRAE, Aix Marseille Univ, Pôle R&D ECLA, RECOVER, Aix-en-Provence, France
| | - Mark A Whiteside
- Centre for Research in Animal Behaviour, Psychology, University of Exeter, Exeter, UK.,School of Biological and Marine Sciences, University of Plymouth, Drake Circus, Plymouth, UK
| | - Ivan Jarić
- Biology Centre of the Czech Academy of Sciences, Institute of Hydrobiology, České Budějovice, Czech Republic.,University of South Bohemia, Faculty of Science, Department of Ecosystem Biology, České Budějovice, Czech Republic
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Gupte PR, Beardsworth CE, Spiegel O, Lourie E, Toledo S, Nathan R, Bijleveld AI. A guide to pre-processing high-throughput animal tracking data. J Anim Ecol 2021; 91:287-307. [PMID: 34657296 PMCID: PMC9299236 DOI: 10.1111/1365-2656.13610] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/02/2021] [Accepted: 10/14/2021] [Indexed: 11/29/2022]
Abstract
Modern, high‐throughput animal tracking increasingly yields ‘big data’ at very fine temporal scales. At these scales, location error can exceed the animal's step size, leading to mis‐estimation of behaviours inferred from movement. ‘Cleaning’ the data to reduce location errors is one of the main ways to deal with position uncertainty. Although data cleaning is widely recommended, inclusive, uniform guidance on this crucial step, and on how to organise the cleaning of massive datasets, is relatively scarce. A pipeline for cleaning massive high‐throughput datasets must balance ease of use and computationally efficiency, in which location errors are rejected while preserving valid animal movements. Another useful feature of a pre‐processing pipeline is efficiently segmenting and clustering location data for statistical methods while also being scalable to large datasets and robust to imperfect sampling. Manual methods being prohibitively time‐consuming, and to boost reproducibility, pre‐processing pipelines must be automated. We provide guidance on building pipelines for pre‐processing high‐throughput animal tracking data to prepare it for subsequent analyses. We apply our proposed pipeline to simulated movement data with location errors, and also show how large volumes of cleaned data can be transformed into biologically meaningful ‘residence patches’, for exploratory inference on animal space use. We use tracking data from the Wadden Sea ATLAS system (WATLAS) to show how pre‐processing improves its quality, and to verify the usefulness of the residence patch method. Finally, with tracks from Egyptian fruit bats Rousettus aegyptiacus, we demonstrate the pre‐processing pipeline and residence patch method in a fully worked out example. To help with fast implementation of standardised methods, we developed the R package atlastools, which we also introduce here. Our pre‐processing pipeline and atlastools can be used with any high‐throughput animal movement data in which the high data‐volume combined with knowledge of the tracked individuals' movement capacity can be used to reduce location errors. atlastools is easy to use for beginners while providing a template for further development. The common use of simple yet robust pre‐processing steps promotes standardised methods in the field of movement ecology and leads to better inferences from data.
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Affiliation(s)
- Pratik Rajan Gupte
- Groningen Institute for Evolutionary Life Sciences, University of Groningen, Groningen, The Netherlands.,Department of Coastal Systems, NIOZ Royal Netherlands Institute for Sea Research, Den Burg, The Netherlands
| | - Christine E Beardsworth
- Department of Coastal Systems, NIOZ Royal Netherlands Institute for Sea Research, Den Burg, The Netherlands
| | - Orr Spiegel
- School of Zoology, Faculty of Life Sciences, Tel Aviv University, Tel Aviv, Israel.,Minerva Center for Movement Ecology, The Hebrew University of Jerusalem, Jerusalem, Israel
| | - Emmanuel Lourie
- Minerva Center for Movement Ecology, The Hebrew University of Jerusalem, Jerusalem, Israel.,Movement Ecology Lab, Department of Ecology, Evolution, and Behavior, Alexander Silberman Institute of Life Sciences, The Hebrew University of Jerusalem, Jerusalem, Israel
| | - Sivan Toledo
- Minerva Center for Movement Ecology, The Hebrew University of Jerusalem, Jerusalem, Israel.,Blavatnik School of Computer Science, Tel Aviv University, Tel Aviv, Israel
| | - Ran Nathan
- Minerva Center for Movement Ecology, The Hebrew University of Jerusalem, Jerusalem, Israel.,Movement Ecology Lab, Department of Ecology, Evolution, and Behavior, Alexander Silberman Institute of Life Sciences, The Hebrew University of Jerusalem, Jerusalem, Israel
| | - Allert I Bijleveld
- Department of Coastal Systems, NIOZ Royal Netherlands Institute for Sea Research, Den Burg, The Netherlands
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