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      climwin : An R Toolbox for Climate Window Analysis

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      PLoS ONE
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          Abstract

          When studying the impacts of climate change, there is a tendency to select climate data from a small set of arbitrary time periods or climate windows (e.g., spring temperature). However, these arbitrary windows may not encompass the strongest periods of climatic sensitivity and may lead to erroneous biological interpretations. Therefore, there is a need to consider a wider range of climate windows to better predict the impacts of future climate change. We introduce the R package climwin that provides a number of methods to test the effect of different climate windows on a chosen response variable and compare these windows to identify potential climate signals. climwin extracts the relevant data for each possible climate window and uses this data to fit a statistical model, the structure of which is chosen by the user. Models are then compared using an information criteria approach. This allows users to determine how well each window explains variation in the response variable and compare model support between windows. climwin also contains methods to detect type I and II errors, which are often a problem with this type of exploratory analysis. This article presents the statistical framework and technical details behind the climwin package and demonstrates the applicability of the method with a number of worked examples.

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          Climate change and evolution: disentangling environmental and genetic responses.

          Rapid climate change is likely to impose strong selection pressures on traits important for fitness, and therefore, microevolution in response to climate-mediated selection is potentially an important mechanism mitigating negative consequences of climate change. We reviewed the empirical evidence for recent microevolutionary responses to climate change in longitudinal studies emphasizing the following three perspectives emerging from the published data. First, although signatures of climate change are clearly visible in many ecological processes, similar examples of microevolutionary responses in literature are in fact very rare. Second, the quality of evidence for microevolutionary responses to climate change is far from satisfactory as the documented responses are often - if not typically - based on nongenetic data. We reinforce the view that it is as important to make the distinction between genetic (evolutionary) and phenotypic (includes a nongenetic, plastic component) responses clear, as it is to understand the relative roles of plasticity and genetics in adaptation to climate change. Third, in order to illustrate the difficulties and their potential ubiquity in detection of microevolution in response to natural selection, we reviewed the quantitative genetic studies on microevolutionary responses to natural selection in the context of long-term studies of vertebrates. The available evidence points to the overall conclusion that many responses perceived as adaptations to changing environmental conditions could be environmentally induced plastic responses rather than microevolutionary adaptations. Hence, clear-cut evidence indicating a significant role for evolutionary adaptation to ongoing climate warming is conspicuously scarce.
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            Divergent responses to spring and winter warming drive community level flowering trends.

            Analyses of datasets throughout the temperate midlatitude regions show a widespread tendency for species to advance their springtime phenology, consistent with warming trends over the past 20-50 y. Within these general trends toward earlier spring, however, are species that either have insignificant trends or have delayed their timing. Various explanations have been offered to explain this apparent nonresponsiveness to warming, including the influence of other abiotic cues (e.g., photoperiod) or reductions in fall/winter chilling (vernalization). Few studies, however, have explicitly attributed the historical trends of nonresponding species to any specific factor. Here, we analyzed long-term data on phenology and seasonal temperatures from 490 species on two continents and demonstrate that (i) apparent nonresponders are indeed responding to warming, but their responses to fall/winter and spring warming are opposite in sign and of similar magnitude; (ii) observed trends in first flowering date depend strongly on the magnitude of a given species' response to fall/winter vs. spring warming; and (iii) inclusion of fall/winter temperature cues strongly improves hindcast model predictions of long-term flowering trends compared with models with spring warming only. With a few notable exceptions, climate change research has focused on the overall mean trend toward phenological advance, minimizing discussion of apparently nonresponding species. Our results illuminate an understudied source of complexity in wild species responses and support the need for models incorporating diverse environmental cues to improve predictability of community level responses to anthropogenic climate change.
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              Differences in spawning date between populations of common frog reveal local adaptation.

              Phenotypic differences between populations often correlate with climate variables, resulting from a combination of environment-induced plasticity and local adaptation. Species comprising populations that are genetically adapted to local climatic conditions should be more vulnerable to climate change than those comprising phenotypically plastic populations. Assessment of local adaptation generally requires logistically challenging experiments. Here, using a unique approach and a large dataset (>50,000 observations from across Britain), we compare the covariation in temperature and first spawning dates of the common frog (Rana temporaria) across space with that across time. We show that although all populations exhibit a plastic response to temperature, spawning earlier in warmer years, between-population differences in first spawning dates are dominated by local adaptation. Given climate change projections for Britain in 2050-2070, we project that for populations to remain as locally adapted as contemporary populations will require first spawning date to advance by approximately 21-39 days but that plasticity alone will only enable an advance of approximately 5-9 days. Populations may thus face a microevolutionary and gene flow challenge to advance first spawning date by a further approximately 16-30 days over the next 50 years.
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                Author and article information

                Contributors
                Role: Editor
                Journal
                PLoS One
                PLoS ONE
                plos
                plosone
                PLoS ONE
                Public Library of Science (San Francisco, CA USA )
                1932-6203
                2016
                14 December 2016
                : 11
                : 12
                : e0167980
                Affiliations
                [1 ]Department of Evolution, Ecology and Genetics, Research School of Biology, The Australian National University, Canberra, Australia
                [2 ]Department of Animal Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, The Netherlands
                Kerala Forest Research Institute, INDIA
                Author notes

                Competing Interests: The authors have declared that no competing interests exist.

                • Conceptualization: LDB MvdP.

                • Formal analysis: LDB MvdP.

                • Funding acquisition: MvdP.

                • Investigation: LDB MvdP.

                • Methodology: LDB MvdP.

                • Project administration: MvdP.

                • Software: LDB MvdP.

                • Supervision: MvdP.

                • Validation: LDB MvdP.

                • Visualization: LDB MvdP.

                • Writing – original draft: LDB.

                • Writing – review & editing: LDB MvdP.

                Author information
                http://orcid.org/0000-0002-8226-9454
                Article
                PONE-D-16-22284
                10.1371/journal.pone.0167980
                5156382
                27973534
                32770e2b-a7b3-4d00-941e-4e174e723c24
                © 2016 Bailey, van de Pol

                This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

                History
                : 2 June 2016
                : 23 November 2016
                Page count
                Figures: 11, Tables: 5, Pages: 27
                Funding
                Funded by: funder-id http://dx.doi.org/10.13039/501100000923, Australian Research Council;
                Award ID: FT120100204
                Award Recipient :
                LDB was supported by an Australian Postgraduate Award scholarship and MvdP by the Australian Research Council ( http://www.arc.gov.au/; FT120100204). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
                Categories
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