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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

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

5. Habitat preferences of the Collared Flycatcher, Ficedula albicollis (Temm.) in mountains of continental Croatia

Author

Jelena Kralj, Ćiković, D., Dumbović, V., Dolenec, Z., and Tutiš, V.

Subjects
Collared Flycatcher, Ficedula albicollis, forest type, habitat characteristics
Abstract

Habitat selection of Collared Flycatcher, Ficedula albicollis (Temm.) was studied at three mountains of Continental Croatia covered with oak-hornbeam, beech and coniferous forests. Standard point count technique was used (n = 163). Collared Flycatcher territories were found at 59 points, 17 of them identified as the best territories, with two or more pairs present. Habitat at each counting point was described by the circular plot method. Each counting point was further characterized by the forest type. Differences between the proportions of available and used forest types were tested with χ 2 goodness-of-fit test. Standardized selection index (B) and 95% confidence limits with Bonferroni correction were calculated. PCA was used to identify the principal sources of variation in the habitat structure. In our study, both forest types and structural characteristics of habitat had effect on the habitat choice of the Collared Flycatcher. The Collared Flycatcher preferred oak and beech forests and strictly avoided pure coniferous stands. The best territories where mostly situated in the pure beech and mixed beech forests. PCA on habitat characteristics produced five components which accounted for 84.3% of the variation in the habitat structure. PC1 and PC3 indicated the presence of coniferous trees while PC2 and PC4 indicated the forest age. The PCA revealed significant relationship between Collared Flycatcher presence and several structural characteristics of habitat: total tree density, densities of small and large trees, shrub density and average tree basal area. The best territories were situated in the forest patches with low number of large trees. Tree density is an important factor for habitat selection in younger forests, but in stands older than 100 years, other factors play more important role in the habitat selection. The Collared Flycatcher avoided forests with dense shrub layer.

6. Breeding phase and outcome determine space use in European rollers Coracias garrulus prior to migration.

Author

Monti F, Barišić S, Cannarella S, Ćiković D, Tutiš V, Kralj J, and Catoni C

Abstract

The breeding period is a demanding and time-constrained phase for migratory bird species. Breeding outcome and duration can interact with the extent and duration of post-breeding movements, resulting in individual differences in space use ultimately influencing later stages of the annual cycle. We present space-use and home range estimates during the breeding season for 21 European rollers Coracias garrulus tracked between 2018 and 2022, in Italy and Croatia. Using high-resolution spatial GPS data coupled with regular nest-box monitoring, we analyzed differences in space use during the incubation/nestling period versus post-breeding period prior to migration, accounting for the breeding outcome (successful vs. failure). We found that adult movements were strongly reduced during the first phase, whereas increased in the post-breeding phase, especially for failed breeders. Successful breeders remained in the surroundings of the nest site, whereas unsuccessful ones tended to abandon the nest and visit distant areas (up to 500 km) for long periods (60.5 ± 6.2 days). Breeding outcome did not influence the departure date of autumn migration, suggesting that failed breeders used this period for exploratory movements but not for advancing the onset of migration. Such exploratory movements may be functional to prospect and inform settlement decisions in failed breeders in search of new breeding opportunities and may be particularly important in migratory species, which generally have a limited period to gather information prior to autumn migration. The study demonstrates the need to investigate seasonal movements in different populations and the potential importance of prospecting post-breeding movements for long-distance migratory species., Competing Interests: The authors declare no conflict of interest., (© The Author(s) 2023. Published by Oxford University Press on behalf of Editorial Office, Current Zoology.)

Published
2023
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7. Connecting the data landscape of long-term ecological studies: The SPI-Birds data hub.

Author

Culina A, Adriaensen F, Bailey LD, Burgess MD, Charmantier A, Cole EF, Eeva T, Matthysen E, Nater CR, Sheldon BC, Saether BE, Vriend SJG, Zajkova Z, Adamík P, Aplin LM, Angulo E, Artemyev A, Barba E, Barišić S, Belda E, Bilgin CC, Bleu J, Both C, Bouwhuis S, Branston CJ, Broggi J, Burke T, Bushuev A, Camacho C, Campobello D, Canal D, Cantarero A, Caro SP, Cauchoix M, Chaine A, Cichoń M, Ćiković D, Cusimano CA, Deimel C, Dhondt AA, Dingemanse NJ, Doligez B, Dominoni DM, Doutrelant C, Drobniak SM, Dubiec A, Eens M, Einar Erikstad K, Espín S, Farine DR, Figuerola J, Kavak Gülbeyaz P, Grégoire A, Hartley IR, Hau M, Hegyi G, Hille S, Hinde CA, 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 CE, Leivits A, Liker A, Lodjak J, Mägi M, Mainwaring MC, Mänd R, Massa B, Massemin S, Martínez-Padilla J, Mazgajski TD, Mennerat A, Moreno J, Mouchet A, Nakagawa S, Nilsson JÅ, Nilsson JF, Cláudia Norte A, van Oers K, Orell M, Potti J, Quinn JL, Réale D, Kristin Reiertsen T, Rosivall B, Russell AF, Rytkönen S, Sánchez-Virosta P, Santos ESA, Schroeder J, Senar JC, 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 JM, and Visser ME

Subjects
Animals, Databases, Factual, Birds, Metadata
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 as ours, COMADRE for animal demography, etc.) will aid much-needed large-scale ecological data integration., (© 2020 The Authors. Journal of Animal Ecology published by John Wiley & Sons Ltd on behalf of British Ecological Society.)

Published
2021
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8. Weak effects of geolocators on small birds: A meta-analysis controlled for phylogeny and publication bias.

Author

Brlík V, Koleček J, Burgess M, Hahn S, Humple D, Krist M, Ouwehand J, Weiser EL, Adamík P, Alves JA, Arlt D, Barišić S, Becker D, Belda EJ, Beran V, Both C, Bravo SP, Briedis M, Chutný B, Ćiković D, Cooper NW, Costa JS, Cueto VR, Emmenegger T, Fraser K, Gilg O, Guerrero M, Hallworth MT, Hewson C, Jiguet F, Johnson JA, Kelly T, Kishkinev D, Leconte M, Lislevand T, Lisovski S, López C, McFarland KP, Marra PP, Matsuoka SM, Matyjasiak P, Meier CM, Metzger B, Monrós JS, Neumann R, Newman A, Norris R, Pärt T, Pavel V, Perlut N, Piha M, Reneerkens J, Rimmer CC, Roberto-Charron A, Scandolara C, Sokolova N, Takenaka M, Tolkmitt D, van Oosten H, Wellbrock AHJ, Wheeler H, van der Winden J, Witte K, Woodworth BK, and Procházka P

Subjects
Animals, Phylogeny, Publication Bias, Seasons, Animal Migration, Birds
Abstract

Currently, the deployment of tracking devices is one of the most frequently used approaches to study movement ecology of birds. Recent miniaturization of light-level geolocators enabled studying small bird species whose migratory patterns were widely unknown. However, geolocators may reduce vital rates in tagged birds and may bias obtained movement data. There is a need for a thorough assessment of the potential tag effects on small birds, as previous meta-analyses did not evaluate unpublished data and impact of multiple life-history traits, focused mainly on large species and the number of published studies tagging small birds has increased substantially. We quantitatively reviewed 549 records extracted from 74 published and 48 unpublished studies on over 7,800 tagged and 17,800 control individuals to examine the effects of geolocator tagging on small bird species (body mass <100 g). We calculated the effect of tagging on apparent survival, condition, phenology and breeding performance and identified the most important predictors of the magnitude of effect sizes. Even though the effects were not statistically significant in phylogenetically controlled models, we found a weak negative impact of geolocators on apparent survival. The negative effect on apparent survival was stronger with increasing relative load of the device and with geolocators attached using elastic harnesses. Moreover, tagging effects were stronger in smaller species. In conclusion, we found a weak effect on apparent survival of tagged birds and managed to pinpoint key aspects and drivers of tagging effects. We provide recommendations for establishing matched control group for proper effect size assessment in future studies and outline various aspects of tagging that need further investigation. Finally, our results encourage further use of geolocators on small bird species but the ethical aspects and scientific benefits should always be considered., (© 2019 The Authors. Journal of Animal Ecology © 2019 British Ecological Society.)

Published
2020
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