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1. Whole genome resequencing identifies local adaptation associated with environmental variation for redband trout

   https://doi.org/10.1111/mec.16810  

   Andrews, Kimberly R. ; Seaborn, Travis ; Egan, Joshua P. ; Fagnan, Matthew W. ; New, Daniel D. ; Chen, Zhongqi ; Hohenlohe, Paul A. ; Waits, Lisette P. ; Caudill, Christopher C. ; Narum, Shawn R. ( December 2022 , Molecular Ecology)

   Aquatic ectotherms are predicted to harbour genomic signals of local adaptation resulting from selective pressures driven by the strong influence of climate conditions on body temperature. We investigated local adaptation in redband trout (Oncorhynchus mykiss gairdneri) using genome scans for 547 samples from 11 populations across a wide range of habitats and thermal gradients in the interior Columbia River. We estimated allele frequencies for millions of single nucleotide polymorphism loci (SNPs) across populations using low‐coverage whole genome resequencing, and used population structure outlier analyses to identify genomic regions under divergent selection between populations. Twelve genomic regions showed signatures of local adaptation, including two regions associated with genes known to influence migration and developmental timing in salmonids (GREB1L,ROCK1,SIX6). Genotype–environment association analyses indicated that diurnal temperature variation was a strong driver of local adaptation, with signatures of selection driven primarily by divergence of two populations in the northern extreme of the subspecies range. We also found evidence for adaptive differences between high‐elevation desert vs. montane habitats at a smaller geographical scale. Finally, we estimated vulnerability of redband trout to future climate change using ecological niche modelling and genetic offset analyses under two climate change scenarios. These analyses predicted substantial habitat loss and strong genetic shifts necessary for adaptation to future habitats, with the greatest vulnerability predicted for high‐elevation desert populations. Our results provide new insight into the complexity of local adaptation in salmonids, and important predictions regarding future responses of redband trout to climate change.

    

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2. Local adaptation across a complex bioclimatic landscape in two montane bumble bee species

   https://doi.org/10.1111/mec.15376  

   Jackson, Jason M. ; Pimsler, Meaghan L. ; Oyen, Kennan J. ; Strange, James P. ; Dillon, Michael E. ; Lozier, Jeffrey D. ( February 2020 , Molecular Ecology)

   Understanding evolutionary responses to variation in temperature and precipitation across species ranges is of fundamental interest given ongoing climate change. The importance of temperature and precipitation for multiple aspects of bumble bee (Bombus) biology, combined with large geographic ranges that expose populations to diverse environmental pressures, make these insects well‐suited for studying local adaptation. Here, we analyzed genome‐wide sequence data from two widespread bumble bees,Bombus vosnesenskiiandBombus vancouverensis, using multiple environmental association analysis methods to investigate climate adaptation across latitude and altitude. The strongest signatures of selection were observed inB. vancouverensis, but despite unique responses between species for most loci, we detected several shared responses. Genes relating to neural and neuromuscular function and ion transport were especially evident with respect to temperature variables, while genes relating to cuticle formation, tracheal and respiratory system development, and homeostasis were associated with precipitation variables. Our data thus suggest that adaptive responses for tolerating abiotic variation are likely to be complex, but that several parallels among species can emerge even for these complex traits and landscapes. Results provide the framework for future work into mechanisms of thermal and desiccation tolerance in bumble bees and a set of genomic targets that might be monitored for future conservation efforts.

    

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3. Spatial and seasonal variation in thermal sensitivity within North American bird species

   https://doi.org/10.1098/rspb.2023.1398  

   Cohen, Jeremy M. ; Fink, Daniel ; Zuckerberg, Benjamin ( November 2023 , Proceedings of the Royal Society B: Biological Sciences)

   Responses of wildlife to climate change are typically quantified at the species level, but physiological evidence suggests significant intraspecific variation in thermal sensitivity given adaptation to local environments and plasticity required to adjust to seasonal environments. Spatial and temporal variation in thermal responses may carry important implications for climate change vulnerability; for instance, sensitivity to extreme weather may increase in specific regions or seasons. Here, we leverage high-resolution observational data from eBird to understand regional and seasonal variation in thermal sensitivity for 21 bird species. Across their ranges, most birds demonstrated regional and seasonal variation in both thermal peak and range, or the temperature and range of temperatures when observations peaked. Some birds demonstrated constant thermal peaks or ranges across their geographical distributions, while others varied according to local and current environmental conditions. Across species, birds typically demonstrated either geographical or seasonal adaptation to climate. Local adaptation and phenotypic plasticity are likely important but neglected aspects of organismal responses to climate change.

    

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4. Habitat use as indicator of adaptive capacity to climate change

   https://doi.org/10.1111/ddi.13223  

   Teitelbaum, Claire S. ; Sirén, Alexej P. K. ; Coffel, Ethan ; Foster, Jane R. ; Frair, Jacqueline L. ; Hinton, Joseph W. ; Horton, Radley M. ; Kramer, David W. ; Lesk, Corey ; Raymond, Colin ; et al ( January 2021 , Diversity and Distributions)

   Populations of cold‐adapted species at the trailing edges of geographic ranges are particularly vulnerable to the negative effects of climate change from the combination of exposure to warm temperatures and high sensitivity to heat. Many of these species are predicted to decline under future climate scenarios, but they could persist if they can adapt to warming climates either physiologically or behaviourally. We aim to understand local variation in contemporary habitat use and use this information to identify signs of adaptive capacity. We focus on moose (Alces alces), a charismatic species of conservation and public interest.

   The northeastern United States, along the trailing edge of the moose geographic range in North America.

   We compiled data on occurrences and habitat use of moose from remote cameras and GPS collars across the northeastern United States. We use these data to build habitat suitability models at local and regional spatial scales and then to predict future habitat suitability under climate change. We also use fine‐scale GPS data to model relationships between habitat use and temperature on a daily temporal scale and to predict future habitat use.

   We find that habitat suitability for moose will decline under a range of climate change scenarios. However, moose across the region differ in their use of climatic and habitat space, indicating that they could exhibit adaptive capacity. We also find evidence for behavioural responses to weather, where moose increase their use of forested wetland habitats in warmer places and/or times.

   Our results suggest that there will be significant shifts in moose distribution due to climate change. However, if there is spatial variation in thermal tolerance, trailing‐edge populations could adapt to climate change. We highlight that prioritizing certain habitats for conservation (i.e., thermal refuges) could be crucial for this adaptation.

    

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5. From common gardens to candidate genes: exploring local adaptation to climate in red spruce

   https://doi.org/10.1111/nph.18465  

   Capblancq, Thibaut ; Lachmuth, Susanne ; Fitzpatrick, Matthew C. ; Keller, Stephen R. ( October 2022 , New Phytologist)

   Local adaptation to climate is common in plant species and has been studied in a range of contexts, from improving crop yields to predicting population maladaptation to future conditions. The genomic era has brought new tools to study this process, which was historically explored through common garden experiments.

   In this study, we combine genomic methods and common gardens to investigate local adaptation in red spruce and identify environmental gradients and loci involved in climate adaptation. We first use climate transfer functions to estimate the impact of climate change on seedling performance in three common gardens. We then explore the use of multivariate gene–environment association methods to identify genes underlying climate adaptation, with particular attention to the implications of conducting genome scans with and without correction for neutral population structure.

   This integrative approach uncovered phenotypic evidence of local adaptation to climate and identified a set of putatively adaptive genes, some of which are involved in three main adaptive pathways found in other temperate and boreal coniferous species: drought tolerance, cold hardiness, and phenology. These putatively adaptive genes segregated into two ‘modules’ associated with different environmental gradients.

   This study nicely exemplifies the multivariate dimension of adaptation to climate in trees.

    

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