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Roche DG, Raby GD, Norin T, Ern R, Scheuffele H, Skeeles M, Morgan R, Andreassen AH, Clements JC, Louissaint S, Jutfelt F, Clark TD, Binning SA. Paths towards greater consensus building in experimental biology. J Exp Biol 2022; 225:274263. [PMID: 35258604 DOI: 10.1242/jeb.243559] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Abstract
In a recent editorial, the Editors-in-Chief of Journal of Experimental Biology argued that consensus building, data sharing, and better integration across disciplines are needed to address the urgent scientific challenges posed by climate change. We agree and expand on the importance of cross-disciplinary integration and transparency to improve consensus building and advance climate change research in experimental biology. We investigated reproducible research practices in experimental biology through a review of open data and analysis code associated with empirical studies on three debated paradigms and for unrelated studies published in leading journals in comparative physiology and behavioural ecology over the last 10 years. Nineteen per cent of studies on the three paradigms had open data, and 3.2% had open code. Similarly, 12.1% of studies in the journals we examined had open data, and 3.1% had open code. Previous research indicates that only 50% of shared datasets are complete and re-usable, suggesting that fewer than 10% of studies in experimental biology have usable open data. Encouragingly, our results indicate that reproducible research practices are increasing over time, with data sharing rates in some journals reaching 75% in recent years. Rigorous empirical research in experimental biology is key to understanding the mechanisms by which climate change affects organisms, and ultimately promotes evidence-based conservation policy and practice. We argue that a greater adoption of open science practices, with a particular focus on FAIR (Findable, Accessible, Interoperable, Re-usable) data and code, represents a much-needed paradigm shift towards improved transparency, cross-disciplinary integration, and consensus building to maximize the contributions of experimental biologists in addressing the impacts of environmental change on living organisms.
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Affiliation(s)
- Dominique G Roche
- Canadian Centre for Evidence-Based Conservation, Department of Biology and Institute of Environmental and Interdisciplinary Science, Carleton University, Ottawa, ON, Canada, K1S 5B6.,Institut de Biologie, Université de Neuchâtel, 2000 Neuchâtel, Switzerland
| | - Graham D Raby
- Department of Biology, Trent University, Peterborough, ON, Canada, K9L 0G2
| | - Tommy Norin
- DTU Aqua: National Institute of Aquatic Resources, Technical University of Denmark, 2800 Kgs. Lyngby, Denmark
| | - Rasmus Ern
- Department of Biology, Norwegian University of Science and Technology, 7491 Trondheim, Norway
| | - Hanna Scheuffele
- School of Life and Environmental Sciences, Deakin University, Geelong, VIC 3216, Australia
| | - Michael Skeeles
- School of Life and Environmental Sciences, Deakin University, Geelong, VIC 3216, Australia
| | - Rachael Morgan
- Institute of Biodiversity, Animal Health & Comparative Medicine, University of Glasgow, Glasgow G12 8QQ, UK.,Department of Biological Sciences, University of Bergen, 5020 Bergen, Norway
| | - Anna H Andreassen
- Department of Biology, Norwegian University of Science and Technology, 7491 Trondheim, Norway
| | - Jeff C Clements
- Aquaculture and Coastal Ecosystems, Fisheries and Oceans Canada Gulf Region, Moncton, NB, Canada, E1C 9B6
| | - Sarahdghyn Louissaint
- Département de Sciences Biologiques, Université de Montréal, Montréal, QC, Canada, H2V 0B3
| | - Fredrik Jutfelt
- Department of Biology, Norwegian University of Science and Technology, 7491 Trondheim, Norway
| | - Timothy D Clark
- School of Life and Environmental Sciences, Deakin University, Geelong, VIC 3216, Australia
| | - Sandra A Binning
- Département de Sciences Biologiques, Université de Montréal, Montréal, QC, Canada, H2V 0B3
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Meyer KA, Schill DJ. The Gill-Oxygen Limitation Theory and size at maturity/maximum size relationships for salmonid populations occupying flowing waters. J Fish Biol 2021; 98:44-49. [PMID: 32964452 DOI: 10.1111/jfb.14555] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/02/2020] [Revised: 08/28/2020] [Accepted: 09/20/2020] [Indexed: 06/11/2023]
Abstract
The slowing of growth as fish age has long been believed to be related to energy expenditure for maturation, and this rationalization has been used to explain why, across nearly all fish species, the relationship between size at first maturity (Lm ) and maximum (Lmax ) or asymptotic length (L∞ ) is relatively constant. In contrast, the Gill-Oxygen Limitation Theory (GOLT) postulates that (a) fish growth slows because as they grow, their two-dimensional ability to extract oxygen from the water diminishes relative to their three-dimensional weight gain, and (b) they can only invest energy for maturation if oxygen supply at their size at first maturity (Qm ) exceeds that needed for maintenance metabolism (Q∞ ). It has been reported previously across dozens of marine fish species that the relationship between Qm and Q∞ is linear and, further, it can be mathematically converted to Lm vs. L∞ by raising both terms to the power of D (the gill surface factor), resulting in a slope of 1.36. If the GOLT is universal, a similar slope should exist for Lm D vs. L∞ D relationships for freshwater species across multiple individual populations that reside in disparate habitats, although to our knowledge this has never been evaluated. For analysis, we used existing data from previous studies conducted on 51 stream-dwelling populations of redband trout Oncorhynchus mykiss gairdneri, Yellowstone cutthroat trout O. clarkii bouvieri and mountain whitefish Prosopium williamsoni. The resulting Lm D vs. L∞ D slopes combining all data points (1.35) or for all species considered separately (range = 1.29-1.40) were indeed equivalent to the slope originally produced for the marine species from which the GOLT-derived relationship was first reported. We briefly discuss select papers both supporting and resisting various aspects of the GOLT, note that it could potentially explain shrinking sizes of marine fish, and call for more concerted research efforts combining laboratory and field expertise in fish growth research.
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Affiliation(s)
- Kevin A Meyer
- Idaho Department of Fish and Game, Nampa, Idaho, USA
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