Multiscale landscape genomic models to detect signatures of selection in the alpine plant <i>Biscutella laevigata</i>

Leempoel, Kevin; Parisod, Christian; Geiser, Céline; Joost, Stéphane

doi:10.1002/ece3.3778

Cited by 12 publications

(12 citation statements)

References 48 publications

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“…Hence the adaptive fitness of the species led by the population genetic characteristics was determined to ensure the sustainability and genomic resilience of the population through dominant AFLP markers. The dominant markers have already been applied to confirm the adaptive fitness of trees 28,29 and other plant species [30][31][32] . In the present study also, a high MAF (0.65 ± 0.02) of the AFLP markers and a high LD decay (1.99%) in loci-combinations supported their suitability for high-resolution GWAS 33 confirming their frequent coverage of the species genome.…”

Section: Discussionmentioning

confidence: 99%

Adaptive fitness of Sapindus emarginatus Vahl populations towards future climatic regimes and the limiting factors of its distribution

Pal

Vaishnav

Meena

et al. 2020

Sci Rep

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Sapindus emarginatus Vahl (Sapindaceae) also known as 'Indian Soap nut' is significantly important for saponin content in its fruits. However, its current population in India is heavily fragmented due to a lack of sustainable harvesting practices. Moreover, changing climatic regimes may further limit its distribution and possibly compromise the survival of the species in nature. The aim of the present study was to: predict the future distribution range of S. emarginatus; identify the bioclimatic variables limiting this distribution and to evaluate its adaptive fitness and genomic resilience towards these variables. To determine future species distribution range and identify limiting bioclimatic variables, we applied two different ecological niche models (ENMs; BioClim and MaxEnt) on real occurrence data (n = 88 locations). The adaptive fitness of the species was evaluated by quantifying the genetic variability with AFLP markers and marker-environmental associations, using AFLP-associated Bayesian statistics. We found 77% overlap between the baseline (2030) and predicted (2100) species distribution ranges, which were primarily determined by maximum temperature (T MAX) and mean annual precipitation (MAP). the t MAX and MAP contributed 43.1% and 27.1%, respectively to ENM model prediction. Furthermore, AFLP loci significantly associated with bioclimatic variables, and T MAX and MAP represent the lowest proportion (6.15%), confirming to the severe response of the species genome towards these variables. Nevertheless, the very low Linkage disequilibrium (LD) in these loci (4.54%) suggests that the current sensitivity to T MAX and MAP is subject to change during recombination. Moreover, a combination of high heterozygosity (0.40-0.43) and high within-population variability (91.63 ± 0.31%) confirmed high adaptive fitness to maintain reproductive success. Therefore, the current populations of S. emarginatus have substantial genomic resilience towards future climate change, albeit significant conservation efforts (including mass multiplication) are warranted to avoid future deleterious impacts of inbreeding depression on the fragmented populations. Sapindus emarginatus Vahl (Sapindaceae) also known as 'Indian 'Soap nut' is a tree species native to Indian sub-continent. In India, it is considered to be originated in the Western-Ghats and later extended up to the West-Central-North Indian biogeographical regions 1. The species is of substantial importance for global trade in soap and perfumery industries due to the oil and saponin content obtained from its leaves, fruits and seeds. The global trade of saponin from all plant sources is expected to grow up to 970 million US$ in 2023, from 950 million US$ in 2017 2. India exports approximately 63,368 kg/year of saponin extract obtained from all plant sources to different countries 3. The exact contribution of S. emarginatus to the global saponin market is unclear, but probably substantial as the species is widely used traditionally at Indian homes as detergent to wash precious ...

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Section: Discussionmentioning

confidence: 99%

Adaptive fitness of Sapindus emarginatus Vahl populations towards future climatic regimes and the limiting factors of its distribution

Pal

Vaishnav

Meena

et al. 2020

Sci Rep

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“…Alpine environments are ideal settings for studies on local adaptation due to large habitat diversity over short distances (Scherrer & Körner, 2011), and patterns of differentiation were found in alpine plants along geographically narrow gradients (Byars, Papst, & Hoffmann, 2007;Kim & Donohue, 2013;Leempoel, Parisod, Geiser, & Joost, 2018). The broad distribution of A. alpina offers many opportunities to investigate adaptive processes at different spatial scales.…”

Section: Adaptation To Arctic and Alpine Environmentsmentioning

confidence: 99%

Arabis alpina: a perennial model plant for ecological genomics and life-history evolution

Wötzel

Andrello

Albani

et al. 2021

Preprint

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Many model organisms have obtained a prominent status due to an advantageous combination of their life-history characteristics, genetic properties and also practical considerations. In non-crop plants, Arabidopsis thaliana is the most renowned model and has been used as study system to elucidate numerous biological processes at the molecular level. Once a complete genome sequence was available, research has markedly accelerated and further established A. thaliana as the reference to stimulate studies in other species with different biology. Within the Brassicaceae family, the arctic-alpine perennial Arabis alpina has become a model complementary to A. thaliana to study life-history evolution and ecological genomics in harsh environments. In this review, we provide an overview of the properties that facilitated the rapid emergence of A. alpina as a plant model. We summarize the evolutionary history of A. alpina, including the diversification of its mating system, and discuss recent progress in the molecular dissection of developmental traits that are related to its perennial life history and environmental adaptation. We indicate open questions from which future research might be developed in other Brassicaceae species or more distantly related plant families.

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“…Vellend, 2010) or local adaptation (Kawecki and Ebert, 2004). Short distance genetic differentiation was demonstrated along different types of environmental gradients such as altitude (Byars et al, 2007;Leempoel et al, 2018) or in response to short distance variation in metal contamination (Jain and Bradshaw, 1966;Antonovics et al, 1971). Therefore, phenotypic plasticity could be the main mechanism of functional adjustment along short gradients (e.g.…”

Section: Within Population Trait Variationmentioning

confidence: 99%

Functional traits of a broad-niched metallophyte along a toxicity gradient: disentangling intra and inter-population variation

Delhaye

Lange

Faucon

et al. 2018

Environmental and Experimental Botany

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A B S T R A C TStudies on the relative contribution of inter-and intra-population trait variations in broad-niched species along edaphic gradients are still scarce. Here, we explore the variation of eight traits in five populations of Cyanotis longifolia, a broad-niched metallophyte thriving on very broad gradients of soil copper concentration in Central Africa. Variation at species level was decomposed into covariation with copper, variation among sites, and residual variation. The proportion of the variance explained by the site and by the local copper gradient in each site ranged from 10 to 32% and between 5 and 51% respectively, depending on trait. At the species level, specific leaf area decreased and leaf Cu and Co concentrations increased with increasing soil Cu concentration. Surprisingly, traits related to plant size show a quadratic response with higher values on both high and low soil Cu concentrations. This could be accounted for by population-specific patterns of covariation with soil copper. Population specific traits responses were found, with some populations exhibiting no significant response while the others sometimes show opposing variation patterns. The reasons for such idiosyncratic patterns are discussed in terms of interactions with other soil factors influencing Cu availability and toxicity. In further studies on trait variation along toxicity gradients, we recommend to investigate the small scale edaphic variability and to measure traits at the population level to capture the diversity of functional responses. contents or functional traits values (Lefebvre, 1974;Lange et al., 2017b;Stein et al., 2017;Frérot et al., 2018). Although metallophytes tolerance

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Multiscale landscape genomic models to detect signatures of selection in the alpine plant Biscutella laevigata

Cited by 12 publications

References 48 publications

Adaptive fitness of Sapindus emarginatus Vahl populations towards future climatic regimes and the limiting factors of its distribution

Adaptive fitness of Sapindus emarginatus Vahl populations towards future climatic regimes and the limiting factors of its distribution

Arabis alpina: a perennial model plant for ecological genomics and life-history evolution

Functional traits of a broad-niched metallophyte along a toxicity gradient: disentangling intra and inter-population variation

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