Landscape genomics predicts climate change‐related genetic offset for the widespread <i>Platycladus orientalis</i> (Cupressaceae)

Jia, Kai‐Hua; Wang, Zhao; Maier, Paul A.; Hu, Xinxin; Jin, Yuqing; Zhou, Shanshan; Jiao, Si-Qian; El‐Kassaby, Yousry A.; Wang, Xiaoru; Mao, Jian‐Feng

doi:10.1111/eva.12891

Cited by 50 publications

(49 citation statements)

References 59 publications

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“…This may be an advantage of dioecy, which avoids inbreeding. Our study results also suggest that dioecious plants have greater heterozygosity than cosexual plants, based on a comparison of our F IS values with previously published estimates based on the genome-wide SNPs data (Tables 2-4), 0.035-0.091 (Rhododendron japonoheptamerum) [29]; 0.05-0.19 (Platycladus orientalis) [33]; 0.05 (Thuja koraiensis) [33]; 0.051-0.754 (Tectona grandis) [30]). However, the level of heterozygosity is influenced not only by reproductive system of the focal species, but also other factors, e.g., population size [34], age of individuals [35].…”

Section: Discussionsupporting

confidence: 84%

Genetic Diversity and Structure of Apomictic and Sexually Reproducing Lindera Species (Lauraceae) in Japan

Nakamura

Nanami

Okuno

et al. 2021

Forests

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Research Highlights: genetic diversity in populations were compared among related shrub species with different reproductive systems. Background and Objectives: Lindera species are dioecious trees or shrubs that produce seeds by mating of males and females. To evaluate the importance of genetic diversity for the persistence of natural populations, we compared genetic information among four Lindera species in Japan. Three are dioecious shrubs (Lindera praecox, Lindera umbellata, and Lindera obtusiloba) that produce seeds by sexual reproduction. The remaining species, Lindera glauca, reproduces by apomixis; only female plants are found in Japan. Materials and Methods: all four species were sampled across a wide geographic area, from Tohoku to Kyushu, Japan. Single nucleotide polymorphisms (SNPs) were detected by multiplexed ISSR genotyping by sequencing (MIG-seq) and the resulting genetic diversity parameters were compared among populations. Results: in all sexually reproducing species, the values of observed heterozygosity were close to the expected ones and the inbreeding coefficients were nearly 0. These results were supposed to be caused by their obligate outcrossing. The genetic difference increased, in ascending order, between a mother plant and its seeds, within populations, and across geographic space. We observed a substantial geographic component in the genetic structure of these species. For L. glauca, the genetic difference between a mother and its seeds, within populations, and across space were not significantly different from what would be expected from PCR errors. Genetic diversity within and among populations of L. glauca was extremely low. Conclusions: apomixis has the advantage of being able to found populations from a single individual, without mating, which may outweigh the disadvantages associated with the extremely low genetic diversity of L. glauca. This may explain why this species is so widely distributed in Japan. Provided that the current genotypes remain suited to environmental conditions, L. glauca may not be constrained by its limited genetic diversity.

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Section: Discussionsupporting

confidence: 84%

Genetic Diversity and Structure of Apomictic and Sexually Reproducing Lindera Species (Lauraceae) in Japan

Nakamura

Nanami

Okuno

et al. 2021

Forests

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“…Specifically, we found a significant association between genetic variation and temperature variables (bio03, AET, bio04, bio07; Figs 4, S9), suggesting that temperature is an important driver of genetic variation within C . agrestis , as detected in previous studies of angiosperm trees (Ahrens et al ., 2019; Jiang et al ., 2019; Jia et al ., 2020). In fact, there is growing evidence that high‐mountain environments experience more rapid changes in temperature than environments at lower elevations (Pepin et al ., 2015; Palazzi et al ., 2019).…”

Section: Discussionmentioning

confidence: 99%

“…Thus, habitat changes may have large effect on genetic structure for C. agrestis, indicating its sensitivity to environmental niche. Studying local adaptation contributes to understanding the ability of populations to sustain or adapt to rapid climate change (Jia et al, 2020). We associated environmental variables with genetic structure to demonstrate the impact of environmental heterogeneity on population divergence.…”

Section: Impact Of Environmental Heterogeneity In Population Divergencementioning

confidence: 99%

Genomic insights into adaptation to heterogeneous environments for the ancient relictual Circaeaster agrestis (Circaeasteraceae, Ranunculales)

et al. 2020

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Summary Investigating the interaction between environmental heterogeneity and local adaptation is critical for understanding the evolutionary history of a species, providing the premise for studying the response of organisms to rapid climate change. However, for most species how exactly the spatial heterogeneity promotes population divergence and how genomic variations contribute to adaptive evolution remain poorly understood. We examine the contributions of geographical and environmental variables to population divergence of the relictual, alpine herb Circaeaster agrestis, as well as the genetic basis of local adaptation using RAD‐seq and plastome data. We detected significant genetic structure with an extraordinary disequilibrium of genetic diversity among regions, and signals of isolation‐by‐distance along with isolation‐by‐resistance. The populations were estimated to begin diverging in the late Miocene, along with a possible ancestral distribution of the Hengduan Mountains and adjacent regions. Both environmental gradient and redundancy analyses revealed significant association between genetic variation and temperature variables. Genome–environment association analyses identified 16 putatively adaptive loci related mainly to biotic and abiotic stress resistance. Our genome‐wide data provide new insights into the important role of environmental heterogeneity in shaping genetic structure, and access the footprints of local adaptation in an ancient relictual species, informing future conservation efforts.

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“…The results suggested that factors associated with temperature best explained the distribution of genomic diversity. The model also predicted that the northern and southern margins of the species distribution are at high risk in facing climate change (Jia et al, 2020). Future studies that investigate the adaptive potential to climate change in diverse species will enable researchers to detect more generalized patterns.…”

Section: Predicting the Adaptive Potential Of Plants Under Climate Chmentioning

confidence: 93%

“…Recently, spatial modeling of biodiversity has been applied to map the geographic distribution of genomic variation in response to current and future environmental adaptation (e.g., Gugger et al, 2013;Fitzpatrick & Keller, 2015). For example, Jia et al (2020) employed gradient forest modeling, integrating geographic, environmental, and genomic data, to investigate the climate adaptive potential of Platycladus orientalis (Cupressaceae), an ecologically and medicinally important conifer species. The results suggested that factors associated with temperature best explained the distribution of genomic diversity.…”

Section: Predicting the Adaptive Potential Of Plants Under Climate Chmentioning

confidence: 99%

Plant adaptation to climate change—Where are we?

Anderson

Song

2020

J of Sytematics Evolution

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Climate change poses critical challenges for population persistence in natural communities, for agriculture and environmental sustainability, and for food security. In this review, we discuss recent progress in climatic adaptation in plants. We evaluate whether climate change exerts novel selection and disrupts local adaptation, whether gene flow can facilitate adaptive responses to climate change, and whether adaptive phenotypic plasticity could sustain populations in the short term. Furthermore, we discuss how climate change influences species interactions. Through a more in‐depth understanding of these eco‐evolutionary dynamics, we will increase our capacity to predict the adaptive potential of plants under climate change. In addition, we review studies that dissect the genetic basis of plant adaptation to climate change. Finally, we highlight key research gaps, ranging from validating gene function to elucidating molecular mechanisms, expanding research systems from model species to other natural species, testing the fitness consequences of alleles in natural environments, and designing multifactorial studies that more closely reflect the complex and interactive effects of multiple climate change factors. By leveraging interdisciplinary tools (e.g., cutting‐edge omics toolkits, novel ecological strategies, newly developed genome editing technology), researchers can more accurately predict the probability that species can persist through this rapid and intense period of environmental change, as well as cultivate crops to withstand climate change, and conserve biodiversity in natural systems.

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Landscape genomics predicts climate change‐related genetic offset for the widespread Platycladus orientalis (Cupressaceae)

Cited by 50 publications

References 59 publications

Genetic Diversity and Structure of Apomictic and Sexually Reproducing Lindera Species (Lauraceae) in Japan

Genetic Diversity and Structure of Apomictic and Sexually Reproducing Lindera Species (Lauraceae) in Japan

Genomic insights into adaptation to heterogeneous environments for the ancient relictual Circaeaster agrestis (Circaeasteraceae, Ranunculales)

Plant adaptation to climate change—Where are we?

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