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1. Connecting the data landscape of long-term ecological studies:The SPI-Birds data hub

Author

Culina, A., Adriaensen, F., Bailey, L.D., Burgess, M.D., Charmantier, A., Cole, E.F., Eeva, T., Matthysen, E., Nater, C.R., Sheldon, B.C., Sæther, B.-E., Vriend, S.J.G., Zajkova, Z., Adamík, P., Aplin, L.M., Angulo, E., Artemyev, A., Barba, E., Barišić, S., Belda, E., Bilgin, C.C., Bleu, J., Both, C., Bouwhuis, S., Branston, C.J., Broggi, J., Burke, T., Bushuev, A., Camacho, C., Campobello, D., Canal, D., Cantarero, A., Caro, S.P., Cauchoix, M., Chaine, A., Cichoń, M., Ćiković, D., Cusimano, C.A., Deimel, C., Dhondt, A.A., Dingemanse, N.J., Doligez, B., Dominoni, D.M., Doutrelant, C., Drobniak, S.M., Dubiec, A., Eens, M., Einar Erikstad, K., Espín, S., Farine, D.R., Figuerola, J., Kavak Gülbeyaz, P., Grégoire, A., Hartley, I.R., Hau, M., Hegyi, G., Hille, S., Hinde, C.A., Holtmann, B., Ilyina, T., Isaksson, C., Iserbyt, A., Ivankina, E., Kania, W., Kempenaers, B., Kerimov, A., Komdeur, J., Korsten, P., Král, M., Krist, M., Lambrechts, M., Lara, C.E., Leivits, A., Liker, A., Lodjak, J., Mägi, M., Mainwaring, M.C., Mänd, R., Massa, B., Massemin, S., Martínez-Padilla, J., Mazgajski, T.D., Mennerat, A., Moreno, J., Mouchet, A., Nakagawa, S., Nilsson, J.-Å., Nilsson, J.F., Cláudia Norte, A., van Oers, K., Orell, M., Potti, J., Quinn, J.L., Réale, D., Kristin Reiertsen, T., Rosivall, B., Russell, A.F., Rytkönen, S., Sánchez-Virosta, P., Santos, E.S.A., Schroeder, J., Senar, J.C., Seress, G., Slagsvold, T., Szulkin, M., Teplitsky, C., Tilgar, V., Tolstoguzov, A., Török, J., Valcu, M., Vatka, E., Verhulst, S., Watson, H., Yuta, T., Zamora-Marín, J.M., Visser, M.E., Culina, A., Adriaensen, F., Bailey, L.D., Burgess, M.D., Charmantier, A., Cole, E.F., Eeva, T., Matthysen, E., Nater, C.R., Sheldon, B.C., Sæther, B.-E., Vriend, S.J.G., Zajkova, Z., Adamík, P., Aplin, L.M., Angulo, E., Artemyev, A., Barba, E., Barišić, S., Belda, E., Bilgin, C.C., Bleu, J., Both, C., Bouwhuis, S., Branston, C.J., Broggi, J., Burke, T., Bushuev, A., Camacho, C., Campobello, D., Canal, D., Cantarero, A., Caro, S.P., Cauchoix, M., Chaine, A., Cichoń, M., Ćiković, D., Cusimano, C.A., Deimel, C., Dhondt, A.A., Dingemanse, N.J., Doligez, B., Dominoni, D.M., Doutrelant, C., Drobniak, S.M., Dubiec, A., Eens, M., Einar Erikstad, K., Espín, S., Farine, D.R., Figuerola, J., Kavak Gülbeyaz, P., Grégoire, A., Hartley, I.R., Hau, M., Hegyi, G., Hille, S., Hinde, C.A., Holtmann, B., Ilyina, T., Isaksson, C., Iserbyt, A., Ivankina, E., Kania, W., Kempenaers, B., Kerimov, A., Komdeur, J., Korsten, P., Král, M., Krist, M., Lambrechts, M., Lara, C.E., Leivits, A., Liker, A., Lodjak, J., Mägi, M., Mainwaring, M.C., Mänd, R., Massa, B., Massemin, S., Martínez-Padilla, J., Mazgajski, T.D., Mennerat, A., Moreno, J., Mouchet, A., Nakagawa, S., Nilsson, J.-Å., Nilsson, J.F., Cláudia Norte, A., van Oers, K., Orell, M., Potti, J., Quinn, J.L., Réale, D., Kristin Reiertsen, T., Rosivall, B., Russell, A.F., Rytkönen, S., Sánchez-Virosta, P., Santos, E.S.A., Schroeder, J., Senar, J.C., Seress, G., Slagsvold, T., Szulkin, M., Teplitsky, C., Tilgar, V., Tolstoguzov, A., Török, J., Valcu, M., Vatka, E., Verhulst, S., Watson, H., Yuta, T., Zamora-Marín, J.M., and Visser, M.E.

Abstract

The integration and synthesis of the data in different areas of science is drastically slowed and hindered by a lack of standards and networking programmes. Long-term studies of individually marked animals are not an exception. These studies are especially important as instrumental for understanding evolutionary and ecological processes in the wild. Furthermore, their number and global distribution provides a unique opportunity to assess the generality of patterns and to address broad-scale global issues (e.g. climate change). To solve data integration issues and enable a new scale of ecological and evolutionary research based on long-term studies of birds, we have created the SPI-Birds Network and Database (www.spibirds.org)—a large-scale initiative that connects data from, and researchers working on, studies of wild populations of individually recognizable (usually ringed) birds. Within year and a half since the establishment, SPI-Birds has recruited over 120 members, and currently hosts data on almost 1.5 million individual birds collected in 80 populations over 2,000 cumulative years, and counting. SPI-Birds acts as a data hub and a catalogue of studied populations. It prevents data loss, secures easy data finding, use and integration and thus facilitates collaboration and synthesis. We provide community-derived data and meta-data standards and improve data integrity guided by the principles of Findable, Accessible, Interoperable and Reusable (FAIR), and aligned with the existing metadata languages (e.g. ecological meta-data language). The encouraging community involvement stems from SPI-Bird's decentralized approach: research groups retain full control over data use and their way of data management, while SPI-Birds creates tailored pipelines to convert each unique data format into a standard format. We outline the lessons learned, so that other communities (e.g. those working on other taxa) can adapt our successful model. Creating community-specific hubs (such

Published
2021

2. Connecting the data landscape of long-term ecological studies : The SPI-Birds data hub

Author

Culina, A., Adriaensen, F., Bailey, L.D., Burgess, M.D., Charmantier, A., Cole, E.F., Eeva, T., Matthysen, E., Nater, C.R., Sheldon, B.C., Sæther, B.-E., Vriend, S.J.G., Zajkova, Z., Adamík, P., Aplin, L.M., Angulo, E., Artemyev, A., Barba, E., Barišić, S., Belda, E., Bilgin, C.C., Bleu, J., Both, C., Bouwhuis, S., Branston, C.J., Broggi, J., Burke, T., Bushuev, A., Camacho, C., Campobello, D., Canal, D., Cantarero, A., Caro, S.P., Cauchoix, M., Chaine, A., Cichoń, M., Ćiković, D., Cusimano, C.A., Deimel, C., Dhondt, A.A., Dingemanse, N.J., Doligez, B., Dominoni, D.M., Doutrelant, C., Drobniak, S.M., Dubiec, A., Eens, M., Einar Erikstad, K., Espín, S., Farine, D.R., Figuerola, J., Kavak Gülbeyaz, P., Grégoire, A., Hartley, I.R., Hau, M., Hegyi, G., Hille, S., Hinde, C.A., Holtmann, B., Ilyina, T., Isaksson, C., Iserbyt, A., Ivankina, E., Kania, W., Kempenaers, B., Kerimov, A., Komdeur, J., Korsten, P., Král, M., Krist, M., Lambrechts, M., Lara, C.E., Leivits, A., Liker, A., Lodjak, J., Mägi, M., Mainwaring, M.C., Mänd, R., Massa, B., Massemin, S., Martínez-Padilla, J., Mazgajski, T.D., Mennerat, A., Moreno, J., Mouchet, A., Nakagawa, S., Nilsson, J.-Å., Nilsson, J.F., Cláudia Norte, A., van Oers, K., Orell, M., Potti, J., Quinn, J.L., Réale, D., Kristin Reiertsen, T., Rosivall, B., Russell, A.F., Rytkönen, S., Sánchez-Virosta, P., Santos, E.S.A., Schroeder, J., Senar, J.C., Seress, G., Slagsvold, T., Szulkin, M., Teplitsky, C., Tilgar, V., Tolstoguzov, A., Török, J., Valcu, M., Vatka, E., Verhulst, S., Watson, H., Yuta, T., Zamora-Marín, J.M., Visser, M.E., Culina, A., Adriaensen, F., Bailey, L.D., Burgess, M.D., Charmantier, A., Cole, E.F., Eeva, T., Matthysen, E., Nater, C.R., Sheldon, B.C., Sæther, B.-E., Vriend, S.J.G., Zajkova, Z., Adamík, P., Aplin, L.M., Angulo, E., Artemyev, A., Barba, E., Barišić, S., Belda, E., Bilgin, C.C., Bleu, J., Both, C., Bouwhuis, S., Branston, C.J., Broggi, J., Burke, T., Bushuev, A., Camacho, C., Campobello, D., Canal, D., Cantarero, A., Caro, S.P., Cauchoix, M., Chaine, A., Cichoń, M., Ćiković, D., Cusimano, C.A., Deimel, C., Dhondt, A.A., Dingemanse, N.J., Doligez, B., Dominoni, D.M., Doutrelant, C., Drobniak, S.M., Dubiec, A., Eens, M., Einar Erikstad, K., Espín, S., Farine, D.R., Figuerola, J., Kavak Gülbeyaz, P., Grégoire, A., Hartley, I.R., Hau, M., Hegyi, G., Hille, S., Hinde, C.A., Holtmann, B., Ilyina, T., Isaksson, C., Iserbyt, A., Ivankina, E., Kania, W., Kempenaers, B., Kerimov, A., Komdeur, J., Korsten, P., Král, M., Krist, M., Lambrechts, M., Lara, C.E., Leivits, A., Liker, A., Lodjak, J., Mägi, M., Mainwaring, M.C., Mänd, R., Massa, B., Massemin, S., Martínez-Padilla, J., Mazgajski, T.D., Mennerat, A., Moreno, J., Mouchet, A., Nakagawa, S., Nilsson, J.-Å., Nilsson, J.F., Cláudia Norte, A., van Oers, K., Orell, M., Potti, J., Quinn, J.L., Réale, D., Kristin Reiertsen, T., Rosivall, B., Russell, A.F., Rytkönen, S., Sánchez-Virosta, P., Santos, E.S.A., Schroeder, J., Senar, J.C., Seress, G., Slagsvold, T., Szulkin, M., Teplitsky, C., Tilgar, V., Tolstoguzov, A., Török, J., Valcu, M., Vatka, E., Verhulst, S., Watson, H., Yuta, T., Zamora-Marín, J.M., and Visser, M.E.

Abstract

The integration and synthesis of the data in different areas of science is drastically slowed and hindered by a lack of standards and networking programmes. Long-term studies of individually marked animals are not an exception. These studies are especially important as instrumental for understanding evolutionary and ecological processes in the wild. Furthermore, their number and global distribution provides a unique opportunity to assess the generality of patterns and to address broad-scale global issues (e.g. climate change). To solve data integration issues and enable a new scale of ecological and evolutionary research based on long-term studies of birds, we have created the SPI-Birds Network and Database (www.spibirds.org)—a large-scale initiative that connects data from, and researchers working on, studies of wild populations of individually recognizable (usually ringed) birds. Within year and a half since the establishment, SPI-Birds has recruited over 120 members, and currently hosts data on almost 1.5 million individual birds collected in 80 populations over 2,000 cumulative years, and counting. SPI-Birds acts as a data hub and a catalogue of studied populations. It prevents data loss, secures easy data finding, use and integration and thus facilitates collaboration and synthesis. We provide community-derived data and meta-data standards and improve data integrity guided by the principles of Findable, Accessible, Interoperable and Reusable (FAIR), and aligned with the existing metadata languages (e.g. ecological meta-data language). The encouraging community involvement stems from SPI-Bird's decentralized approach: research groups retain full control over data use and their way of data management, while SPI-Birds creates tailored pipelines to convert each unique data format into a standard format. We outline the lessons learned, so that other communities (e.g. those working on other taxa) can adapt our successful model. Creating community-specific hubs (such

Published
2021

3. Connecting the data landscape of long-term ecological studies: the SPI-Birds data hub

Author

Tomasz D. Mazgajski, Jesús Martínez-Padilla, Gábor Seress, Miloš Krist, Davide M. Dominoni, Peter Adamík, Camillo Cusimano, Juli Broggi, Zuzana Zajková, Ana Cláudia Norte, Samuel P. Caro, Pınar Kavak Gülbeyaz, Erik Matthysen, Arnaud Grégoire, Marcel M. Lambrechts, Vallo Tilgar, Sabine Marlene Hille, Kees van Oers, Chloé R. Nater, Markku Orell, Alexandr Artemyev, Szymon M. Drobniak, Julia Schroeder, Hannah Watson, Claire Doutrelant, Tone Kristin Reiertsen, Eduardo J. Belda, Carlos E. Lara, Jaime Potti, Antica Culina, Caroline Deimel, C. Can Bilgin, Kjell Einar Erikstad, Terry Burke, Seppo Rytkönen, Liam D. Bailey, Miroslav Král, José M. Zamora-Marín, Marko Mägi, T.A. Ilyina, A.V. Bushuev, Andrew F. Russell, Malcolm D. Burgess, John L. Quinn, Jan-Åke Nilsson, André A. Dhondt, Peter Korsten, Denis Réale, Josefa Bleu, Caroline Isaksson, Jaanis Lodjak, Sandra Bouwhuis, Bruno Massa, Mark C. Mainwaring, David Canal, Eduardo S. A. Santos, Sylvie Massemin, Tore Slagsvold, Emma Vatka, Alexia Mouchet, Elena Angulo, Juan Moreno, Alexis S. Chaine, Jan Komdeur, Raivo Mänd, Claire J. Branston, Adèle Mennerat, Stefan J. G. Vriend, Wojciech Kania, Davor Ćiković, Anne Charmantier, Maxime Cauchoix, E.V. Ivankina, Juan Carlos Senar, Shinichi Nakagawa, Agu Leivits, Andrey Tolstoguzov, Blandine Doligez, Ben C. Sheldon, Mariusz Cichoń, Gergely Hegyi, Teru Yuta, Benedikt Holtmann, Ella F. Cole, Céline Teplitsky, Marcel E. Visser, Johan Nilsson, Alejandro Cantarero, Jordi Figuerola, Sanja Barišić, Marta Szulkin, Simon Verhulst, Silvia Espín, Arne Iserbyt, Emilio Barba, Bart Kempenaers, Damien R. Farine, Pablo Sánchez-Virosta, Tapio Eeva, Anvar Kerimov, Niels Jeroen Dingemanse, Anna Dubiec, Christiaan Both, Daniela Campobello, Mihai Valcu, Bernt-Erik Sæther, Marcel Eens, Michaela Hau, Ian R. Hartley, Lucy M. Aplin, Frank Adriaensen, János Török, Balázs Rosivall, Carlos Camacho, Camilla A. Hinde, András Liker, Dutch Research Council, Research Council of Norway, Organismal and Evolutionary Biology Research Programme, Culina A., Adriaensen F., Bailey L.D., Burgess M.D., Charmantier A., Cole E.F., Eeva T., Matthysen E., Nater C.R., Sheldon B.C., Saether B.-E., Vriend S.J.G., Zajkova Z., Adamik P., Aplin L.M., Angulo E., Artemyev A., Barba E., Barisic S., Belda E., Bilgin C.C., Bleu J., Both C., Bouwhuis S., Branston C.J., Broggi J., Burke T., Bushuev A., Camacho C., Campobello D., Canal D., Cantarero A., Caro S.P., Cauchoix M., Chaine A., Cichon M., Cikovic D., Cusimano C.A., Deimel C., Dhondt A.A., Dingemanse N.J., Doligez B., Dominoni D.M., Doutrelant C., Drobniak S.M., Dubiec A., Eens M., Einar Erikstad K., Espin S., Farine D.R., Figuerola J., Kavak Gulbeyaz P., Gregoire A., Hartley I.R., Hau M., Hegyi G., Hille S., Hinde C.A., Holtmann B., Ilyina T., Isaksson C., Iserbyt A., Ivankina E., Kania W., Kempenaers B., Kerimov A., Komdeur J., Korsten P., Kral M., Krist M., Lambrechts M., Lara C.E., Leivits A., Liker A., Lodjak J., Magi M., Mainwaring M.C., Mand R., Massa B., Massemin S., Martinez-Padilla J., Mazgajski T.D., Mennerat A., Moreno J., Mouchet A., Nakagawa S., Nilsson J.-A., Nilsson J.F., Claudia Norte A., van Oers K., Orell M., Potti J., Quinn J.L., Reale D., Kristin Reiertsen T., Rosivall B., Russell A.F., Rytkonen S., Sanchez-Virosta P., Santos E.S.A., Schroeder J., Senar J.C., Seress G., Slagsvold T., Szulkin M., Teplitsky C., Tilgar V., Tolstoguzov A., Torok J., Valcu M., Vatka E., Verhulst S., Watson H., Yuta T., Zamora-Marin J.M., Visser M.E., WildCRU, University of Oxford [Oxford], University of Antwerp (UA), Commonwealth Scientific and Industrial Research Organisation [Canberra] (CSIRO), University of Turku, Department of Evolutionary Biology and Environmental Studies, University of Zurich, Edward Grey Institute, Department of Zoology, University of Oxford, Département Ecologie, Physiologie et Ethologie (DEPE-IPHC), Institut Pluridisciplinaire Hubert Curien (IPHC), Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Université de Strasbourg (UNISTRA)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Université de Strasbourg (UNISTRA)-Centre National de la Recherche Scientifique (CNRS), Station d'écologie théorique et expérimentale (SETE), Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Observatoire Midi-Pyrénées (OMP), Météo France-Centre National d'Études Spatiales [Toulouse] (CNES)-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Météo France-Centre National d'Études Spatiales [Toulouse] (CNES)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD), OpenMETU, Both group, Komdeur lab, Verhulst lab, and Animal Ecology (AnE)

Subjects
SELECTION, 0106 biological sciences, ZOOLOGIA, Databases, Factual, 05 Environmental Sciences, Zoology and botany: 480 [VDP], Research network, 01 natural sciences, long‐term studies, Behavioral Ecology, Data standards, meta‐data standards, Data hub, ComputingMilieux_MISCELLANEOUS, Research Articles, meta‐, PERSONALITY, CLIMATE-CHANGE, Ecology, Environmental resource management, ALTER, meta&#8208, birds, data standards, database, FAIR data, long-term studies, meta-data standards, research network, PE&RC, Gedragsecologie, Chemistry, Geography, international, [SDE]Environmental Sciences, 1181 Ecology, evolutionary biology, POPULATIONS, Plan_S-Compliant_OA, Life Sciences & Biomedicine, long‐, Research Article, CLUTCH-SIZE, Long-term studies, Environmental Sciences & Ecology, Animal Breeding and Genomics, Zoologi, 15.- Proteger, restaurar y promover la utilización sostenible de los ecosistemas terrestres, gestionar de manera sostenible los bosques, combatir la desertificación y detener y revertir la degradación de la tierra, y frenar la pérdida de diversidad biológica, 010603 evolutionary biology, Birds, Database, 07 Agricultural and Veterinary Sciences, ddc:570, VDP::Mathematics and natural scienses: 400::Zoology and botany: 480, Animals, Fokkerij en Genomica, Zoologiske og botaniske fag: 480 [VDP], Biology, Ecology, Evolution, Behavior and Systematics, Meta-data standards, Metadata, FAIR data, Science & Technology, long&#8208, business.industry, 010604 marine biology & hydrobiology, 06 Biological Sciences, 15. Life on land, database, meta-data standards, long-term studies, birds, data standards, research network, EVOLUTION, Term (time), 13. Climate action, Research council, VDP::Matematikk og naturvitenskap: 400::Zoologiske og botaniske fag: 480, Animal Science and Zoology, term studies, GREAT TITS, business, Zoology, RESPONSES
Abstract

The integration and synthesis of the data in different areas of science is drastically slowed and hindered by a lack of standards and networking programmes. Long-term studies of individually marked animals are not an exception. These studies are especially important as instrumental for understanding evolutionary and eco-logical processes in the wild. Furthermore, their number and global distribution provides a unique opportunity to assess the generality of patterns and to address broad-scale global issues (e.g. climate change)., To solve data integration issues and enable a new scale of ecological and evolution-ary research based on long-term studies of birds, we have created the SPI-Birds Network and Database (www.spibirds.org)—a large-scale initiative that connects data from, and researchers working on, studies of wild populations of individually recognizable (usually ringed) birds. Within year and a half since the establishment, SPI-Birds has recruited over 120 members, and currently hosts data on almost 1.5 million individual birds collected in 80 populations over 2,000 cumulative years, and counting., SPI-Birds acts as a data hub and a catalogue of studied populations. It prevents data loss, secures easy data finding, use and integration and thus facilitates collab-oration and synthesis. We provide community-derived data and meta-data stand-ards and improve data integrity guided by the principles of Findable, Accessible, Interoperable and Reusable (FAIR), and aligned with the existing metadata lan-guages (e.g. ecological meta-data language)., The encouraging community involvement stems from SPI-Bird's decentralized ap-proach: research groups retain full control over data use and their way of data management, while SPI-Birds creates tailored pipelines to convert each unique data format into a standard format. We outline the lessons learned, so that other communities (e.g. those working on other taxa) can adapt our successful model. Creating community-specific hubs (such as ours, COMADRE for animal demogra-phy, etc.) will aid much-needed large-scale ecological data integration., The SPI-Birds have been supported by an NWO personal grant (grant number 016.Veni.181.054) to A.C., and a Research Council of Norway grant: 223257 (SFF-III) and 267511 (EVOCLIM).

Published
2020
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4. Relationships between organohalogen contaminants and blood plasma clinical-chemical parameters in chicks of three raptor species from Northern Norway.

Author

Sonne C, Bustnes JO, Herzke D, Jaspers VL, Covaci A, Halley DJ, Moum T, Eulaers I, Eens M, Ims RA, Hanssen SA, Einar Erikstad K, Johnsen T, Schnug L, Rigét FF, and Jensen AL

Subjects
Alkaline Phosphatase blood, Animals, Bilirubin blood, Blood Glucose analysis, Blood Proteins analysis, Cholesterol blood, Creatinine blood, Eagles, Flame Retardants, Fluorocarbons toxicity, Hawks, Hydrocarbons, Brominated toxicity, Norway, Principal Component Analysis, Uric Acid blood, Blood Chemical Analysis, Environmental Pollutants toxicity, Hydrocarbons, Chlorinated toxicity, Polychlorinated Biphenyls toxicity
Abstract

Organohalogen contaminants (OHCs) may affect various physiological parameters in birds including blood chemistry. We therefore examined blood plasma clinical-chemical parameters and OHCs in golden eagle, white-tailed eagle and goshawk chicks from Northern Norway. Correlation analyses on pooled data showed that alkaline phosphatase (ALKP), glucose and creatinine were significantly negatively correlated to various OHCs (all: p<0.05; r: -0.43 to -0.55; n=23), while alanine aminotransferase (ALAT), total protein, cholesterol, uric acid, total bilirubin, ratios protein:creatinine and uric acid:creatinine were significantly positively correlated to various OHCs (all: p<0.05; r: 0.43-0.96). Based on these relationships, we suggest that the OHC concentrations found in certain raptor chicks of Northern Scandinavia may impact blood plasma biochemistry in a way that indicates impacts on liver, kidney, bone, endocrinology and metabolism. In order to elaborate further on these relationships and mechanisms, we recommend that a larger study should take place in the near future.

Published
2010
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