AbstractPolicies ensuring that research data are available on public archives are increasingly being implemented at the government, funding agency, and journal level. These policies are predicated on the idea that authors are poor stewards of their data, particularly over the long term, and indeed many studies have found that authors are often unable or unwilling to share their data. However, there are no systematic estimates of how the availability of research data changes with time since publication. We therefore requested datasets from a relatively homogenous set of 516 articles published between 2 and 22 years ago, and found that availability of the data was strongly affected by article age. For papers where the authors gave the status of their data, the odds of a dataset being extant fell by 17% per year. In addition, the odds that we could find a working email address for the first, last or corresponding author fell by 7% per year. Our results reinforce the notion that, in the long term, research data cannot be reliably preserved by individual researchers, and further demonstrate the urgent need for policies mandating data sharing via public archives.

AbstractBenthic and limnetic threespine stickleback (Gasterosteus aculeatus) are a classic example of ecological speciation. Behavioural and armour divergence between these species has been predicted to be the result of divergent selection driven in part by differential predation from cutthroat trout (Oncorhynchus clarki). To experimentally test this prediction, we reared split families of benthic–limnetic hybrids in the presence or absence of trout predation. Our results show that the presence of trout had little effect upon stickleback behaviour. We then compared performance in behavioural assays among stickleback that varied in armour to test if armour morphology correlates with behaviour. Our measurements revealed trait correlations between several behaviours and components of armour morphology. Trout predation did not result in an increased correlation between traits, therefore differential trout predation between benthics and limnetics is unlikely to be the cause of these correlations. The presence of trait correlations in advanced generation hybrids suggests that pleiotropy or linkage between genes underlying behaviour and armour morphology may be greater than previously appreciated.

AbstractThe data underlying scientific papers should be accessible to researchers both now and in the future, but how best can we ensure that these data are available? Here we examine the effectiveness of four approaches to data archiving: no stated archiving policy, recommending (but not requiring) archiving, and two versions of mandating data deposition at acceptance. We control for differences between data types by trying to obtain data from papers that use a single, widespread population genetic analysis, STRUCTURE. At one extreme, we found that mandated data archiving policies that require the inclusion of a data availability statement in the manuscript improve the odds of finding the data online almost 1000-fold compared to having no policy. However, archiving rates at journals with less stringent policies were only very slightly higher than those with no policy at all. We also assessed the effectiveness of asking for data directly from authors and obtained over half of the requested datasets, albeit with ∼8 d delay and some disagreement with authors. Given the long-term benefits of data accessibility to the academic community, we believe that journal-based mandatory data archiving policies and mandatory data availability statements should be more widely adopted.

AbstractThe addition of predators can play a key role in structuring ecological communities through both consumptive and non-consumptive effects. Stocking of piscivorous fish in lakes and similar experimental introductions have provided fundamental evidence in support of trophic cascade theory. Yet, the impact of piscivore addition on cross ecosystem subsidies and meso-predator resource use has not been well studied. Here, we use a replicated pond experiment to document the trophic impacts of a piscivore, cutthroat trout Onchorhynchus clarkii, on aquatic communities already containing a meso-predatory fish (threespine stickleback Gasterosteus aculeatus) and neighbouring terrestrial ecosystems. We find that piscivore addition led to a trophic cascade that extended across an ecosystem boundary: trout addition increased the biomass and average size of insects emerging into the terrestrial system. Piscivores caused a diet shift in stickleback, a non-consumptive effect that was likely mainly responsible for the increase in emerging insect biomass. We additionally show that heterogeneity in the strength of the pelagic trophic cascade was more closely correlated with the magnitude of diet shift (reflecting a non-consumptive effect) than decreases in stickleback abundance (a consumptive effect). Taken together, our experiment demonstrates that the addition of a piscivore causes a trophic cascade that can extend beyond the aquatic system and suggests that non-consumptive effects may more strongly influence the strength of a trophic cascade than has been previously recognized.

AbstractVision is a sensory modality of fundamental importance for many animals, aiding in foraging, detection of predators, and mate choice. Adaptation to local ambient light conditions is thought to be commonplace, and a match between spectral sensitivity and light spectrum is predicted. We use opsin gene expression to test for local adaptation and matching of spectral sensitivity in multiple independent lake populations of threespine stickleback populations derived since the last ice age from an ancestral marine form. We show that sensitivity across the visual spectrum is shifted repeatedly towards longer wavelengths in freshwater compared with the ancestral marine form. Laboratory rearing suggests this shift is largely genetically based. Using a new metric, we found that the magnitude of shift in spectral sensitivity in each population corresponds strongly to the transition in the availability of different wavelengths of light between the marine and lake environment. We also found evidence of local adaptation by sympatric benthic and limnetic ecotypes to different light environments within lakes. Our findings indicate rapid parallel evolution of the visual system to altered light conditions. The changes have not, however, yielded a close matching of spectrum-wide sensitivity to wavelength availability, for reasons we discuss.

Vision is a sensory modality of fundamental importance for many animals, aiding in foraging, detection of predators, and mate choice. Adaptation to local ambient light conditions is thought to be commonplace, and a match between spectral sensitivity and light spectrum is predicted. We use opsin gene expression to test for local adaptation and matching of spectral sensitivity in multiple independent lake populations of threespine stickleback populations derived since the last ice age from an ancestral marine form. We show that sensitivity across the visual spectrum is shifted repeatedly towards longer wavelengths in freshwater compared with the ancestral marine form. Laboratory rearing suggests this shift is largely genetically based. Using a new metric, we found that the magnitude of shift in spectral sensitivity in each population corresponds strongly to the transition in the availability of different wavelengths of light between the marine and lake environment. We also found evidence of local adaptation by sympatric benthic and limnetic ecotypes to different light environments within lakes. Our findings indicate rapid parallel evolution of the visual system to altered light conditions. The changes have not, however, yielded a close matching of spectrum-wide sensitivity to wavelength availability, for reasons we discuss.

The addition of predators can play a key role in structuring ecological communities through both consumptive and non-consumptive effects. Stocking of piscivorous fish in lakes and similar experimental introductions have provided fundamental evidence in support of trophic cascade theory. Yet, the impact of piscivore addition on cross ecosystem subsidies and meso-predator resource use has not been well studied. Here, we use a replicated pond experiment to document the trophic impacts of a piscivore, cutthroat trout Onchorhynchus clarkii, on aquatic communities already containing a meso-predatory fish (threespine stickleback Gasterosteus aculeatus) and neighbouring terrestrial ecosystems. We find that piscivore addition led to a trophic cascade that extended across an ecosystem boundary: trout addition increased the biomass and average size of insects emerging into the terrestrial system. Piscivores caused a diet shift in stickleback, a non-consumptive effect that was likely mainly responsible for the increase in emerging insect biomass. We additionally show that heterogeneity in the strength of the pelagic trophic cascade was more closely correlated with the magnitude of diet shift (reflecting a non-consumptive effect) than decreases in stickleback abundance (a consumptive effect). Taken together, our experiment demonstrates that the addition of a piscivore causes a trophic cascade that can extend beyond the aquatic system and suggests that non-consumptive effects may more strongly influence the strength of a trophic cascade than has been previously recognized.

Benthic and limnetic threespine stickleback (Gasterosteus aculeatus) are a classic example of ecological speciation. Behavioural and armour divergence between these species has been predicted to be the result of divergent selection driven in part by differential predation from cutthroat trout (Oncorhynchus clarki). To experimentally test this prediction, we reared split families of benthic–limnetic hybrids in the presence or absence of trout predation. Our results show that the presence of trout had little effect upon stickleback behaviour. We then compared performance in behavioural assays among stickleback that varied in armour to test if armour morphology correlates with behaviour. Our measurements revealed trait correlations between several behaviours and components of armour morphology. Trout predation did not result in an increased correlation between traits, therefore differential trout predation between benthics and limnetics is unlikely to be the cause of these correlations. The presence of trait correlations in advanced generation hybrids suggests that pleiotropy or linkage between genes underlying behaviour and armour morphology may be greater than previously appreciated.

Policies ensuring that research data are available on public archives are increasingly being implemented at the government, funding agency, and journal level. These policies are predicated on the idea that authors are poor stewards of their data, particularly over the long term, and indeed many studies have found that authors are often unable or unwilling to share their data. However, there are no systematic estimates of how the availability of research data changes with time since publication. We therefore requested datasets from a relatively homogenous set of 516 articles published between 2 and 22 years ago, and found that availability of the data was strongly affected by article age. For papers where the authors gave the status of their data, the odds of a dataset being extant fell by 17% per year. In addition, the odds that we could find a working email address for the first, last or corresponding author fell by 7% per year. Our results reinforce the notion that, in the long term, research data cannot be reliably preserved by individual researchers, and further demonstrate the urgent need for policies mandating data sharing via public archives.

The data underlying scientific papers should be accessible to researchers both now and in the future, but how best can we ensure that these data are available? Here we examine the effectiveness of four approaches to data archiving: no stated archiving policy, recommending (but not requiring) archiving, and two versions of mandating data deposition at acceptance. We control for differences between data types by trying to obtain data from papers that use a single, widespread population genetic analysis, STRUCTURE. At one extreme, we found that mandated data archiving policies that require the inclusion of a data availability statement in the manuscript improve the odds of finding the data online almost 1000-fold compared to having no policy. However, archiving rates at journals with less stringent policies were only very slightly higher than those with no policy at all. We also assessed the effectiveness of asking for data directly from authors and obtained over half of the requested datasets, albeit with ∼8 d delay and some disagreement with authors. Given the long-term benefits of data accessibility to the academic community, we believe that journal-based mandatory data archiving policies and mandatory data availability statements should be more widely adopted.