2018
Journal article
Open Access
Navigating the unfolding open data landscape in ecology and evolution
Culina A., Baglioni M., Crowther T. W., Visser M. E., Woutersen-Windhouwer S., Manghi P.
ecology NA Behavior and Systematics No theme Metadata Evolution Ecology international Data Repositories open data Open Data
Open access to data is revolutionizing the sciences. To allow ecologists and evolutionary biologists to confidently find and use the existing data, we provide an overview of the landscape of online data infrastructures, and highlight the key points to consider when using open data. We introduce an online collaborative platform to keep a community-driven, updated list of the best sources that enable search for data in one interface. In doing so, our aim is to lower the barrier to accessing open data, and encourage its use by researchers hoping to increase the scope, reliability and value of their findings.
Source: Nature ecology & evolution On line 2 (2018): 420–426. doi:10.1038/s41559-017-0458-2
Publisher: Springer Nature, London, Regno Unito
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4. Hampton, S. E. et al. Big data and the future of ecology in a nutshell. Front. Ecol. Environ. 11, 156-162 (2013). A brief overview of the importance of embracing the data as an important research product in ecology, issues it in doing this, and current eofrts that help the change to happen.
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9. Piwowar, H. A. & Fridsma, D. B. Examining the uses of shared data. Nat. Preced. https://doi.org/10.1038/npre.2007.425.3 (2007).
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11. Whitlock, M. C. Data archiving in ecology and evolution: best practices. Trends Ecol. Evol. 26, 61-65 (2011).
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13. Losos, J. B. et al. Evolutionary biology for the 21st century. PLoS Biol. 11, e1001466 (2013).
14. Mcnutt, B. M. et al. Liberating field science samples and data. Science 351, 1024-1026 (2016).
15. Crowther, T. W. et al. Quantifying global soil carbon losses in response to warming. Nature 54, 104-108 (2016).
16. Hawkins, S. J. et al. Data rescue and re-use: recycling old information to address new policy concerns. Mar. Policy 42, 91-98 (2013).
17. Lindenmayer, D. B. et al. Value of long-term ecological studies. Austral Ecol. 37, 745-757 (2012).
18. Duke, C. S. & Porter, J. H. eTh ethics of data sharing and reuse in biology. Prof. Biol. 63, 483-489 (2013).
19. Guidelines on Open Access to Scienticfi Publications and Research Data in Horizon 2020 (European Commission, 2016).
20. Wilkinson, M. D. Comment: eTh FAIR Guiding Principles for scientific data management and stewardship. Sci. Data 2, 1-9 (2016).
21. Assante, M., Candela, L., Castelli, D. & Tani, A. Are scienticfi data repositories coping with research data publishing? Data Sci. J. 15, 1-24 (2016).
22. Candela, L., Castelli, D., Manzi, A. & Pagano, P. Realising virtual research environments by hybrid data infrastructures: the D4Science Experience. In International Symposium on Grids and Clouds 2014 https://pos.sissa.it/210/022 (Proceedings of Science, 2014).
23. Carroll, M. W. Sharing research data and intellectual property law: a primer. PLoS Biol. 13, e1002235 (2015).
24. Data (Creative Commons Wiki, accessed 1 May 2017); https://wiki. creativecommons.org/wiki/Data
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26. Michener, W. K., Brunt, J. W., Helly, J. J., Kirchner, T. B. & Staofrd, S. G. Nongeospatial metadata for the ecological sciences. Ecol. Appl. 7, 330-342 (1997).
27. Schmidt-Kloiber, A., Moe, S. J., Dudley, B., Strackbein, J. & Vogl, R. ehT WISER metadatabase: the key to more than 100 ecological datasets from European rivers, lakes and coastal waters. Hydrobiologia 704, 29-38 (2013).
28. Kratz, J. E. & Strasser, C. Comment: Making data count. Sci. Data 2, 10-14 (2015).
29. Magee, A. F., May, M. R. & Moore, B. R. eTh dawn of open access to phylogenetic data. PloS ONE 9, e110268 (2014).
30. Roche, D. G., Kruuk, L. E. B., Lanfear, R. & Binning, S. A. Public data archiving in ecology and evolution: how well are we doing? PLoS Biol. 13, e1002295 (2015).
31. Mills, J. A. et al. Archiving primary data: solutions for long-term studies. Trends Ecol. Evol. 30, 581-589 (2015).
32. Meyer, C., Weigelt, P. & Kreft, H. Multidimensional biases, gaps and uncertainties in global plant occurrence information. Ecol. Lett. 19, 992-1006 (2016).
33. Gonzales, A. et al. Estimating local biodiversity change: a critique of papers claiming no net loss of local diversity. Ecology 97, 1949-1960 (2016).
A.C. collected the data (list of resources) and wrote the majority of the manuscript. M.E.V., T.W.C., S.W.-W., P.M. and M.B all contributed to the manuscript. P.M. and M.B. established the methodological approach for the data source description and the D4Science data catalogue. S.W.-W. also provided insights into the legal implications of data use.
4. Hampton, S. E. et al. Big data and the future of ecology in a nutshell. Front. Ecol. Environ. 11, 156-162 (2013). A brief overview of the importance of embracing the data as an important research product in ecology, issues it in doing this, and current eofrts that help the change to happen.
5. Hampton, S. E. et al. eTh Tao of open science for ecology. Ecosphere 6, 1-13 (2015).
6. Michener, W. K. Ecological data sharing. Ecol. Inform. 29, 33-44 (2015). History and future of data sharing in ecology, including the role of sociological changes and cyberinfrastructures, and best practices for data sharing.
7. Wallis, J. C., Rolando, E. & Borgman, C. L. If we share data, will anyone use them? Data sharing and reuse in the long tail of science and technology. PLoS ONE 8, e67332 (2013).
8. Evans, S. R. Gauging the purported costs of public data archiving for long-term population studies. PLoS Biol. 14, 1-9 (2016).
9. Piwowar, H. A. & Fridsma, D. B. Examining the uses of shared data. Nat. Preced. https://doi.org/10.1038/npre.2007.425.3 (2007).
10. Kenall, A., Harold, S. & Foote, C. An open future for ecological and evolutionary data? BMC Evol. Biol. 14, 1-6 (2014).
11. Whitlock, M. C. Data archiving in ecology and evolution: best practices. Trends Ecol. Evol. 26, 61-65 (2011).
12. White, E. P. et al. Nine simple ways to make it easier to (re)use your data. Ideas Ecol. Evol. 6, 1-10 (2013).
13. Losos, J. B. et al. Evolutionary biology for the 21st century. PLoS Biol. 11, e1001466 (2013).
14. Mcnutt, B. M. et al. Liberating field science samples and data. Science 351, 1024-1026 (2016).
15. Crowther, T. W. et al. Quantifying global soil carbon losses in response to warming. Nature 54, 104-108 (2016).
16. Hawkins, S. J. et al. Data rescue and re-use: recycling old information to address new policy concerns. Mar. Policy 42, 91-98 (2013).
17. Lindenmayer, D. B. et al. Value of long-term ecological studies. Austral Ecol. 37, 745-757 (2012).
18. Duke, C. S. & Porter, J. H. eTh ethics of data sharing and reuse in biology. Prof. Biol. 63, 483-489 (2013).
19. Guidelines on Open Access to Scienticfi Publications and Research Data in Horizon 2020 (European Commission, 2016).
20. Wilkinson, M. D. Comment: eTh FAIR Guiding Principles for scientific data management and stewardship. Sci. Data 2, 1-9 (2016).
21. Assante, M., Candela, L., Castelli, D. & Tani, A. Are scienticfi data repositories coping with research data publishing? Data Sci. J. 15, 1-24 (2016).
22. Candela, L., Castelli, D., Manzi, A. & Pagano, P. Realising virtual research environments by hybrid data infrastructures: the D4Science Experience. In International Symposium on Grids and Clouds 2014 https://pos.sissa.it/210/022 (Proceedings of Science, 2014).
23. Carroll, M. W. Sharing research data and intellectual property law: a primer. PLoS Biol. 13, e1002235 (2015).
24. Data (Creative Commons Wiki, accessed 1 May 2017); https://wiki. creativecommons.org/wiki/Data
25. Reichman, J. H. & Uhlir, P. F. A contractually reconstructed research commons for scientific data in a highly protectionist intellectual property environment. Law Contemp. Prob. 66, 315-462 (2003).
26. Michener, W. K., Brunt, J. W., Helly, J. J., Kirchner, T. B. & Staofrd, S. G. Nongeospatial metadata for the ecological sciences. Ecol. Appl. 7, 330-342 (1997).
27. Schmidt-Kloiber, A., Moe, S. J., Dudley, B., Strackbein, J. & Vogl, R. ehT WISER metadatabase: the key to more than 100 ecological datasets from European rivers, lakes and coastal waters. Hydrobiologia 704, 29-38 (2013).
28. Kratz, J. E. & Strasser, C. Comment: Making data count. Sci. Data 2, 10-14 (2015).
29. Magee, A. F., May, M. R. & Moore, B. R. eTh dawn of open access to phylogenetic data. PloS ONE 9, e110268 (2014).
30. Roche, D. G., Kruuk, L. E. B., Lanfear, R. & Binning, S. A. Public data archiving in ecology and evolution: how well are we doing? PLoS Biol. 13, e1002295 (2015).
31. Mills, J. A. et al. Archiving primary data: solutions for long-term studies. Trends Ecol. Evol. 30, 581-589 (2015).
32. Meyer, C., Weigelt, P. & Kreft, H. Multidimensional biases, gaps and uncertainties in global plant occurrence information. Ecol. Lett. 19, 992-1006 (2016).
33. Gonzales, A. et al. Estimating local biodiversity change: a critique of papers claiming no net loss of local diversity. Ecology 97, 1949-1960 (2016).
A.C. collected the data (list of resources) and wrote the majority of the manuscript. M.E.V., T.W.C., S.W.-W., P.M. and M.B all contributed to the manuscript. P.M. and M.B. established the methodological approach for the data source description and the D4Science data catalogue. S.W.-W. also provided insights into the legal implications of data use.
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BibTeX entry
@article{oai:it.cnr:prodotti:402369,
title = {Navigating the unfolding open data landscape in ecology and evolution},
author = {Culina A. and Baglioni M. and Crowther T. W. and Visser M. E. and Woutersen-Windhouwer S. and Manghi P.},
publisher = {Springer Nature, London, Regno Unito},
doi = {10.1038/s41559-017-0458-2},
journal = {Nature ecology \& evolution On line},
volume = {2},
pages = {420–426},
year = {2018}
}
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