Understanding the factors influencing the current distribution of genetic diversity across a species range is one of the main questions of evolutionary biology, especially given the increasing threat to biodiversity posed by climate change. Historical demographic processes such as population expansion or bottlenecks and decline are known to exert a predominant influence on past and current levels of genetic diversity, and revealing this demo‐genetic history can have immediate conservation implications. We used a whole‐exome capture sequencing approach to analyze polymorphism across the gene space of red spruce (Picea rubens Sarg.), an endemic and emblematic tree species of eastern North America high‐elevation forests that are facing the combined threat of global warming and increasing human activities. We sampled a total of 340 individuals, including populations from the current core of the range in northeastern USA and southeastern Canada and from the southern portions of its range along the Appalachian Mountains, where populations occur as highly fragmented mountaintop “sky islands.” Exome capture baits were designed from the closely relative white spruce (P. glauca Voss) transcriptome, and sequencing successfully captured most regions on or near our target genes, resulting in the generation of a new and expansive genomic resource for studying standing genetic variation in red spruce applicable to its conservation. Our results, based on over 2 million exome‐derived variants, indicate that red spruce is structured into three distinct ancestry groups that occupy different geographic regions of its highly fragmented range. Moreover, these groups show small Ne , with a temporal history of sustained population decline that has been ongoing for thousands (or even hundreds of thousands) of years. These results demonstrate the broad potential of genomic studies for revealing details of the demographic history that can inform management and conservation efforts of nonmodel species with active restoration programs, such as red spruce.
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Phenotypic Variation in Climate-Associated Traits of Red Spruce (Picea rubens Sarg.) along Elevation Gradients in the Southern Appalachian Mountains
Red spruce (Picea rubens) is a long-lived tree species that thrives in cool, moist environs. Its ability to adapt to rapidly changing climate is uncertain. In the southern Appalachian Mountains, red spruce reaches its greatest abundance at high elevations, but can also occur across a range of mid and lower elevations, suggesting the possibility of a correlation between genetic variation and habitat. To assess clinal phenotypic variation in functional traits related to climate adaptation, we collected seed from 82 maternal sib families located along replicated elevational gradients in the Great Smoky Mountains National Park, TN (GSMNP) and Mount Mitchell State Park, NC (MMSP). The percentage of filled seeds and seed mass increased with elevation, indicating that successful pollination and seed development was greatest at the highest elevations. Seedlings sourced from GSMNP displayed a strong relationship between elevation and bud set when grown under common garden conditions. High elevation families set bud as many as 10 days earlier than low elevation families, indicating adaptation to local climate. Across parks, no effect of elevation was noted for bud flush. Our results demonstrate that red spruce in the southern Appalachian Mountains displays clinal variation in bud set that may reflect local adaptation to climate, although this varied between the two parks sampled. We suggest that genetic adaption of red spruce to different climate regimes, at both local and broad spatial scales, is in need of more intensive study, and should be carefully considered when selecting seed sources for restoration.
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- Award ID(s):
- 1656099
- NSF-PAR ID:
- 10107554
- Date Published:
- Journal Name:
- Castanea
- Volume:
- 84
- Issue:
- 2
- ISSN:
- 1938-4386
- Page Range / eLocation ID:
- 128-143
- Format(s):
- Medium: X
- Sponsoring Org:
- National Science Foundation
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Chapman, Mark (Ed.)Abstract Populations along steep environmental gradients are subject to differentiating selection that can result in local adaptation, despite countervailing gene flow, and genetic drift. In montane systems, where species are often restricted to narrow ranges of elevation, it is unclear whether the selection is strong enough to influence functional differentiation of subpopulations differing by a few hundred meters in elevation. We used targeted capture of 12 501 exons from across the genome, including 271 genes previously implicated in altitude adaptation, to test for adaptation to local elevations for 2 highland hummingbird species, Coeligena violifer (n = 62) and Colibri coruscans (n = 101). For each species, we described population genetic structure across the complex geography of the Peruvian Andes and, while accounting for this structure, we tested whether elevational allele frequency clines in single nucleotide polymorphisms (SNPs) showed evidence for local adaptation to elevation. Although the 2 species exhibited contrasting population genetic structures, we found signatures of clinal genetic variation with shifts in elevation in both. The genes with SNP-elevation associations included candidate genes previously discovered for high-elevation adaptation as well as others not previously identified, with cellular functions related to hypoxia response, energy metabolism, and immune function, among others. Despite the homogenizing effects of gene flow and genetic drift, natural selection on parts of the genome evidently optimizes elevation-specific cellular function even within elevation range-restricted montane populations. Consequently, our results suggest local adaptation occurring in narrow elevation bands in tropical mountains, such as the Andes, may effectively make them “taller” biogeographic barriers.more » « less
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Abstract Aim Climate warming is expected to drive upward and poleward shifts at the leading edge of tree species ranges. Disturbance has the potential to accelerate these shifts by altering biotic and abiotic conditions, though this potential is likely to vary by disturbance type. In this study, we assessed whether recent wildfires and spruce beetle outbreaks promoted upward range expansion of trembling aspen.
Location The San Juan Mountains of southern Colorado, USA (37°34′–37°50′N, 106°49′–107°21′W).
Taxon Populus tremuloides .Methods We used aerial imagery to determine the upper elevational limit of adult aspen and conducted seedling surveys at and above this upper limit in burned and unburned areas, which had already incurred high canopy mortality due to spruce bark beetle (
Dendroctonus rufipennis ) outbreaks. We compared characteristics of burned versus unburned bark beetle‐killed sites and assessed microsite conditions related to aspen seedling establishment using generalized linear models and interaction indices.Results Aspen seedling establishment occurred upslope of its previous range within burns, but not in unburned areas, despite severe beetle‐driven canopy mortality across all sites before the fire. Aspen seedling establishment was associated more with the light and mineral soil created by fire than the presence of nearby seed sources. Aspen seedlings were associated with nurse objects such as logs and rocks at the highest elevations, where these objects may ameliorate a range of stressors associated with the high elevation range boundary.
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Abstract Context Processes that shape genomic and ecological divergence can reveal important evolutionary dynamics to inform the conservation of threatened species.
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Fontainea species. Our aim was to compare spatial patterns of genetic variation between the vulnerableFontainea australis (Southern Fontainea) and critically endangeredF. oraria (Coastal Fontainea), endemic to the heterogeneous subtropical region of central, eastern Australia, where large-scale clearing has severely reduced rainforest habitat to a fraction (< 1%) of its pre-European settlement extent.Methods We used a set of 10,000 reduced-representation markers to infer genetic relationships and the drivers of spatial genetic variation across the two species. In addition, we employed a combination of univariate and multivariate genome-environment association analysis using a set of topo-climatic variables to explore potential patterns of local adaptation as a factor impacting genomic divergence.
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Conclusions Divergent selection at the local-habitat scale as a result of dispersal limitations and environmental heterogeneity (including physical barriers) are likely contributors to adaptive divergence between the two
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