An ecological history of the relict genetic lineage of Arabidopsis thaliana

Toledo, Bernardo; Marcer, Arnald; Méndez‐Vigo, Belén; Alonso‐Blanco, Carlos; Picó, F. Xavier

doi:10.1016/j.envexpbot.2019.103800

Cited by 18 publications

(22 citation statements)

References 70 publications

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“…In fact, NE-C2 is a cluster with pronounced altitudinal gradients in NE Spain (from maritime to sub-alpine environments) along which the species is known to have adapted by adjusting various life-cycle and physiological traits [57][58][59][60][61]. In the case of relict-C3, the long evolutionary history of this lineage has provided the means to survive and adapt to diverse Iberian environments over the last millennia [35]. On the contrary, that was not the case for SW-C4, whose genetic differentiation was accounted for by IBR (Fig.…”

Section: Discussionmentioning

confidence: 99%

“…The occurrence of relict populations with an African origin [29,34] also supports such history of Iberian A. thaliana. In fact, habitat suitability of relict populations has been associated to more stable vegetation dynamics since the Last Glacial Maximum and during the Holocene in the Iberian Peninsula [35]. Overall, the geographic ubiquity, the large amount of genetic diversity, the broad variety of habitats occupied, and the long evolutionary history make Iberian A. thaliana an appropriate study system to disentangle the drivers of genetic differentiation at a regional scale.…”

Section: Introductionmentioning

confidence: 99%

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Ecological, genetic and evolutionary drivers of regional genetic differentiation in Arabidopsis thaliana

et al. 2020

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Background: Disentangling the drivers of genetic differentiation is one of the cornerstones in evolution. This is because genetic diversity, and the way in which it is partitioned within and among populations across space, is an important asset for the ability of populations to adapt and persist in changing environments. We tested three major hypotheses accounting for genetic differentiation-isolation-by-distance (IBD), isolation-by-environment (IBE) and isolation-by-resistance (IBR)-in the annual plant Arabidopsis thaliana across the Iberian Peninsula, the region with the largest genomic diversity. To that end, we sampled, genotyped with genome-wide SNPs, and analyzed 1772 individuals from 278 populations distributed across the Iberian Peninsula. Results: IBD, and to a lesser extent IBE, were the most important drivers of genetic differentiation in A. thaliana. In other words, dispersal limitation, genetic drift, and to a lesser extent local adaptation to environmental gradients, accounted for the within-and among-population distribution of genetic diversity. Analyses applied to the four Iberian genetic clusters, which represent the joint outcome of the long demographic and adaptive history of the species in the region, showed similar results except for one cluster, in which IBR (a function of landscape heterogeneity) was the most important driver of genetic differentiation. Using spatial hierarchical Bayesian models, we found that precipitation seasonality and topsoil pH chiefly accounted for the geographic distribution of genetic diversity in Iberian A. thaliana. Conclusions: Overall, the interplay between the influence of precipitation seasonality on genetic diversity and the effect of restricted dispersal and genetic drift on genetic differentiation emerges as the major forces underlying the evolutionary trajectory of Iberian A. thaliana.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Ecological, genetic and evolutionary drivers of regional genetic differentiation in Arabidopsis thaliana

et al. 2020

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“…S6, S7, and S15). ECSY and EFSY likely originated in the Iberian refugium (46,(79)(80)(81), and may remain endemic in that region because they require hot, dry Mediterranean summers to persist.…”

Section: Arabidopsis Germination Niche Today Is Explained By Current Andmentioning

confidence: 99%

“…Our results show that derived lossof-function D-haplotypes are more common in midlatitudes and England, and could have resulted from the nonrelict east-west expansion following human-mediated habitat disturbance. Relict populations in the Iberian Peninsula and Scandinavia might have preserved the ancestral DOG1 E-haplotype that promotes a winter annual cycle, advantageous in more undisturbed habitats (81,82). Moreover, the D-RY haplotype of DOG1 is enriched in the invaded range of North America (SI Appendix, Fig.…”

Section: Arabidopsis Germination Niche Today Is Explained By Current Andmentioning

confidence: 99%

Functional variants of DOG1 control seed chilling responses and variation in seasonal life-history strategies in Arabidopsis thaliana

Martínez‐Berdeja

Stitzer

Taylor

et al. 2020

Proc. Natl. Acad. Sci. U.S.A.

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The seasonal timing of seed germination determines a plant’s realized environmental niche, and is important for adaptation to climate. The timing of seasonal germination depends on patterns of seed dormancy release or induction by cold and interacts with flowering-time variation to construct different seasonal life histories. To characterize the genetic basis and climatic associations of natural variation in seed chilling responses and associated life-history syndromes, we selected 559 fully sequenced accessions of the model annual species Arabidopsis thaliana from across a wide climate range and scored each for seed germination across a range of 13 cold stratification treatments, as well as the timing of flowering and senescence. Germination strategies varied continuously along 2 major axes: 1) Overall germination fraction and 2) induction vs. release of dormancy by cold. Natural variation in seed responses to chilling was correlated with flowering time and senescence to create a range of seasonal life-history syndromes. Genome-wide association identified several loci associated with natural variation in seed chilling responses, including a known functional polymorphism in the self-binding domain of the candidate gene DOG1. A phylogeny of DOG1 haplotypes revealed ancient divergence of these functional variants associated with periods of Pleistocene climate change, and Gradient Forest analysis showed that allele turnover of candidate SNPs was significantly associated with climate gradients. These results provide evidence that A. thaliana’s germination niche and correlated life-history syndromes are shaped by past climate cycles, as well as local adaptation to contemporary climate.

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“…Hypochaeris and Helminthotheca , closely related to Leontodon , originated in western North Africa and then expanded through the Strait of Gibraltar to the Iberian Peninsula during the Pleistocene (Ortiz et al, 2009; Tremetsberger et al, 2016). Similarly, a North African origin with subsequent migration into the Iberian Peninsula has been postulated for a relict lineage of the model plant Arabidopsis thaliana (e.g., Toledo et al, 2020). Future studies including North African samples of L .…”

Section: Discussionmentioning

confidence: 94%

Demography, genetic diversity and expansion load in the colonizing species Leontodon longirostris (Asteraceae) throughout its native range

et al. 2021

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Unravelling the evolutionary processes underlying range expansions is fundamental to understand the distribution of organisms, as well as to predict their future responses to environmental change. Predictions for range expansions include a loss of genetic diversity and an accumulation of deleterious alleles along the expansion axis, which can decrease fitness at the range‐front (expansion load). In plants, empirical studies supporting expansion load are scarce, and its effects remain to be tested outside a few model species. Leontodon longirostris is a colonizing Asteraceae with a widespread distribution in the Western Mediterranean, providing a particularly interesting system to gain insight into the factors that can enhance or mitigate expansion load. In this study, we produced a first genome draft for the species, covering 418 Mbp (~53% of the genome). Although incomplete, this draft was suitable to design a targeted sequencing of ~1.5 Mbp in 238 L. longirostris plants from 21 populations distributed along putative colonization routes in the Iberian Peninsula. Inferred demographic history supports a range expansion from southern Iberia around 40,000 years ago, reaching northern Iberia around 25,000 years ago. The expansion was accompanied by a loss of genetic diversity and a significant increase in the proportion of putatively deleterious mutations. However, levels of expansion load in L. longirostris were smaller than those found in other plant species, which can be explained, at least partially, by its high dispersal ability, the self‐incompatible mating system, and the fact that the expansion occurred along a strong environmental cline.

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An ecological history of the relict genetic lineage of Arabidopsis thaliana

Cited by 18 publications

References 70 publications

Ecological, genetic and evolutionary drivers of regional genetic differentiation in Arabidopsis thaliana

Ecological, genetic and evolutionary drivers of regional genetic differentiation in Arabidopsis thaliana

Functional variants of DOG1 control seed chilling responses and variation in seasonal life-history strategies in Arabidopsis thaliana

Demography, genetic diversity and expansion load in the colonizing species Leontodon longirostris (Asteraceae) throughout its native range

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