Reading materials

This page hosts a list of reading materials on the topics related to the goals of SORTEE.





Academic reading (journal articles - ecology and evolution focus):




  • Gomes, D. G., Pottier, P., Crystal-Ornelas, R., Hudgins, E. J., Foroughirad, V., Sánchez-Reyes, L. L., … & Gaynor, K. M. (2022). Why don’t we share data and code? Perceived barriers and benefits to public archiving practices. Proceedings of the Royal Society B, 289(1987), 20221113. SORTEE conference product!

  • Roche DG, O’Dea RE, Kerr KA, Rytwinski T, Schuster R, Nguyen VM, Young N, Bennett JR, Cooke SJ. 2022. Closing the knowledge-action gap in conservation with open science. Conserv Biol. 36(3):e13835. doi: 10.1111/cobi.13835.



  • Brlík V., Pipek P., Brandis K., Chernetsov N., Costa F.J.V., Herrera M. L.G., Kiat Y., Lanctot R.B., Marra P.P., Norris D.R., Nwaogu C.J., Quillfeldt P., Saalfeld S.T., Stricker C.A., Thomson R.L., Zhao T., Procházka P. (2021) The reuse of avian samples: opportunities, pitfalls, and a solution. Ibis. doi: 10.1111/ibi.12997

  • Bruna E.M., Chazdon R., Errington T.M., Nosek B.A. (2021) A proposal to advance theory and promote collaboration in tropical biology by supporting replications. Biotropica 53: 6-10, doi:10.1111/btp.12912

  • Chacón-Labella J., Boakye M., Enquist B.J., Farfan-Rios W., Gya R., Halbritter A.H., Middleton S.L., von Oppen J., Pastor-Ploskonka S., Strydom T., Vandvik V., Geange S.R. (2021) From a crisis to an opportunity: Eight insights for doing science in the COVID-19 era and beyond. Ecology and Evolution 11: 3588-3596, doi:10.1002/ece3.7026

  • Graham E.B., Averill C., Bond-Lamberty B., Knelman J.E., Krause S., Peralta A.L., Shade A., Smith A.P., Cheng S.J., Fanin N., Freund C., Garcia P.E., Gibbons S.M., Van Goethem M.W., Guebila M.B., Kemppinen J., Nowicki R.J., Pausas J.G., Reed S.P., Rocca J., Sengupta A., Sihi D., Simonin M., Słowiński M., Spawn S.A., Sutherland I., Tonkin J.D., Wisnoski N.I., Zipper S.C., Contributor Consortium (2021) Toward a Generalizable Framework of Disturbance Ecology Through Crowdsourced Science. Frontiers in Ecology and Evolution. 9: 588940, doi:10.3389/fevo.2021.588940

  • Lennox R.J., Harcourt R., Bennett J.R., Davies A., Ford A.T., Frey R.M., Hayward M.W., Hussey N.E., Iverson S.J., Kays R., Kessel S.T., McMahon C., Muelbert M., Murray T.S., Nguyen V.M., Pye J.D., Roche D.G., Whoriskey F.G., Young N., Cooke S.J. (2021) A novel framework to protect animal data in a world of ecosurveillance. BioScience 70: 468-476, doi: 10.1093/BIOSCI/BIAA035

  • Manzano S., Julier A.C.M.(2021) How FAIR are plant sciences in the twenty-first century? the pressing need for reproducibility in plant ecology and evolution. Proceedings of the Royal Society B: Biological Sciences 288: 20202597, doi: 10.1098/rspb.2020.2597

  • O’Dea R.E., Parker T.H., Chee Y.E., Culina A., Drobniak S.M., Duncan D.H., Fidler F., Gould E., Ihle M., Kelly C.D., Lagisz M., Roche D.G., Sánchez-Tójar A., Wilkinson D.P., Wintle B.C., Nakagawa S. (2021) Towards open, reliable, and transparent ecology and evolutionary biology. BMC Biology 19: 68, doi:10.1186/s12915-021-01006-3

  • O’Dea R.E., Lagisz M., Jennions M.D., Koricheva J., Noble D.W.A., Parker T.H., Gurevitch J., Page M.J., Stewart G., Moher D., Nakagawa S. (2021) Preferred reporting items for systematic reviews and meta-analyses in ecology and evolutionary biology: a PRISMA extension. Biological Reviews 96: 1695-1722, doi:10.1111/brv.12721

  • Romanelli J.P., Meli P., Naves R.P., Alves M.C., Rodrigues R.R. (2021) Reliability of evidence-review methods in restoration ecology. Conservation Biology 35: 142-154, doi:10.1111/cobi.13661

  • Romanelli J.P., Silva L.G.M., Gonçalves M.C.P., Naves R.P., de Almeida D.R.A., de Resende A.F., Rodrigues R.R. (2021) Repeatability of the searching process in reviews of restoration outcomes. Restoration Ecology. doi: 10.1111/rec.13496

  • Sequeira A.M.M., O’Toole M., Keates T.R., McDonnell L.H., Braun C.D., Hoenner X., Jaine F.R.A., Jonsen I.D., Newman P., Pye J., Bograd S.J., Hays G.C., Hazen E.L., Holland M., Tsontos V.M., Blight C., Cagnacci F., Davidson S.C., Dettki H., Duarte C.M., Dunn D.C., Eguíluz V.M., Fedak M., Gleiss A.C., Hammerschlag N., Hindell M.A., Holland K., Janekovic I., McKinzie M.K., Muelbert M.M.C., Pattiaratchi C., Rutz C., Sims D.W., Simmons S.E., Townsend B., Whoriskey F., Woodward B., Costa D.P., Heupel M.R., McMahon C.R., Harcourt R., Weise M. (2021) A standardisation framework for bio-logging data to advance ecological research and conservation. Methods in Ecology and Evolution 12: 996-1007, doi:10.1111/2041-210X.13593

  • Yanai R.D., Mann T.A., Hong S.D., Pu G., Zukswert J.M. (2021) The current state of uncertainty reporting in ecosystem studies: a systematic evaluation of peer-reviewed literature. Ecosphere 12: e03535, doi: 10.1002/ecs2.3535

  • Filazzola, A., & Cahill, J. F. (2021). Replication in field ecology: Identifying challenges and proposing solutions. Methods in Ecology and Evolution, 12, 1780– 1792.

  • Marshall, BM & Strine, CT. 2021. Make like a glass frog: In support of increased transparency in herpetology. Herpetological Journal. 31: 35-45.





  • Powers, S. M., and Hampton, S. E.. 2019. Open science, reproducibility, and transparency in ecology. Ecological Applications 29( 1):e01822. 10.1002/eap.1822

  • Nichols, JD, Kendall, WL, Boomer, GS. 2019. Accumulating evidence in ecology: Once is not enough. Ecol Evol. 9: 13991– 14004.

  • Parker. T.H., H. Fraser, S. Nakagawa. 2019. Making conservation science more reliable with preregistration and registered reports. Conservation Biology. 33: 747-750. doi: 10.1111/cobi.13342



  • Fraser, H., T. H. Parker, S. Nakagawa, A. Barnett, F. Fidler (2018) Questionable research practices in ecology and evolution. PLOS ONE, 13(7): e0200303. doi:10.1371/journal.pone.0200303

  • Parker, T.H.,S. Griffith, J. Bronstein, F. Fidler, S. Foster, H. Fraser, W. Forstmeier, J. Gurevitch, J. Koricheva, R. Seppelt, M. Tingley, S. Nakagawa. 2018. Empowering peer reviewers with a checklist to improve transparency. Nature Ecology & Evolution. 2: 929-935. doi: 10.1038/s41559-018-0545-z, pre-print doi: 10.17605/OSF.IO/U4MXD




2016 and earlier

  • Parker, Timothy H., Wolfgang Forstmeier, Julia Koricheva, Fiona Fidler, Jarrod D. Hadfield, Yung En Chee, Clint D. Kelly, Jessica Gurevitch, and Shinichi Nakagawa (2016) Transparency in ecology and evolution: real problems, real solutions. Trends in Ecology & Evolution 31: 711-19. doi:10.1016/j.tree.2016.07.002

  • Kardish, Melissa R., Ulrich G. Mueller, Sabrina Amador-Vargas, Emma I. Dietrich, Rong Ma, Brian Barrett, and Chi-Chun Fang (2015) Blind trust in unblinded observation in ecology, evolution, and behavior. Frontiers in Ecology and Evolution 3: 51. doi:10.3389/fevo.2015.00051

  • Mislan, K. A. S., Jeffrey M. Heer, and Ethan P. White (2015) Elevating the status of code in ecology. Trends in Ecology & Evolution 31: 4-7. doi:10.1016/j.tree.2015.11.006

  • Nosek, Brian A., and others (2015) Promoting an open research culture. Science 348: 1422. doi:10.1126/science.aab2374

  • Barto, E. Kathryn and Matthias C. Rillig (2012) Dissemination biases in ecology: effect sizes matter more than quality. Oikos, 121: 228-235. doi:10.1111/j.1600-0706.2011.19401.x

  • Whitlock, Michael C. (2011) Data archiving in ecology and evolution: best practices. Trends in Ecology & Evolution 26: 61-65. doi:10.1016/j.tree.2010.11.006

  • Borries, C., Sandel, A.A., Koenig, A., Fernandez-Duque, E., Kamilar, J.M., Amoroso, C.R., Barton, R.A., Bray, J., Di Fiore, A., Gilby, I.C., Gordon, A.D., Mundry, R., Port, M., Powell, L.E., Pusey, A.E., Spriggs, A. and Nunn, C.L. 2016. Transparency, usability, and reproducibility: Guiding principles for improving comparative databases using primates as examples. Evolutionary Anthropology, 25: 232-238 doi:10.1002/evan.21502

  • Hampton, S. E., S. S. Anderson, S. C. Bagby, C. Gries, X. Han, E. M. Hart, M. B. Jones, W. C. Lenhardt, A. MacDonald, W. K. Michener, J. Mudge, A. Pourmokhtarian, M. P. Schildhauer, K. H. Woo, and N. Zimmerman. 2015. The Tao of open science for ecology. Ecosphere 6(7):120.


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