Understanding local plant extinctions before it is too late: bridging evolutionary genomics with global ecology

Exposito‐Alonso, Moi

doi:10.1111/nph.18718

Understanding local plant extinctions before it is too late: bridging evolutionary genomics with global ecology

Journal Article · Thu Jan 05 00:00:00 EST 2023 · New Phytologist

DOI:https://doi.org/10.1111/nph.18718· OSTI ID:2421871

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Carnegie Inst. of Science, Stanford, CA (United States); Stanford Univ., CA (United States); OSTI

Understanding evolutionary genomic and population processes within a species range is key to anticipating the extinction of plant species before it is too late. However, most models of biodiversity risk under global change do not account for the genetic variation and local adaptation of different populations. Population diversity is critical to understanding extinction because different populations may be more or less susceptible to global change and, if lost, would reduce the total diversity within a species. Here, two new modeling frameworks advance our understanding of extinction from a population and evolutionary angle: Rapid climate change-driven disruptions in population adaptation are predicted from associations between genomes and local climates. Furthermore, losses of population diversity from global land-use transformations are estimated by scaling relationships of species' genomic diversity with habitat area. Overall, these global eco-evolutionary methods advance the predictability – and possibly the preventability – of the ongoing extinction of plant species.

View Accepted Manuscript (DOE)

Research Organization:: Illinois State University (ISU), Normal, IL (United States)

Sponsoring Organization:: National Institutes of Health (NIH); National Science Foundation (NSF); USDA; USDOE; USDOE Office of Science (SC), Biological and Environmental Research (BER)

Grant/Contract Number:: SC0021286

OSTI ID:: 2421871

Alternate ID(s):: OSTI ID: 1926769

Journal Information:: New Phytologist, Journal Name: New Phytologist Journal Issue: 6 Vol. 237; ISSN 0028-646X

Publisher:: WileyCopyright Statement

Country of Publication:: United States

Language:: English

References (40)

Evolutionary genomics can improve prediction of species’ responses to climate change Waldvogel, Ann‐Marie; Feldmeyer, Barbara; Rolshausen, Gregor Evolution Letters, Vol. 4, Issue 1 https://doi.org/10.1002/evl3.154	journal	January 2020
Genetic diversity targets and indicators in the CBD post-2020 Global Biodiversity Framework must be improved Hoban, Sean; Bruford, Michael; D'Urban Jackson, Josephine Biological Conservation, Vol. 248 https://doi.org/10.1016/j.biocon.2020.108654	journal	August 2020
1,135 Genomes Reveal the Global Pattern of Polymorphism in Arabidopsis thaliana Alonso-Blanco, Carlos; Andrade, Jorge; Becker, Claude Cell, Vol. 166, Issue 2 https://doi.org/10.1016/j.cell.2016.05.063	journal	July 2016
Opportunities and challenges in assessing climate change vulnerability through genomics Hoffmann, Ary A.; Weeks, Andrew R.; Sgrò, Carla M. Cell, Vol. 184, Issue 6 https://doi.org/10.1016/j.cell.2021.02.006	journal	March 2021
Extinction debt of high-mountain plants under twenty-first-century climate change Dullinger, Stefan; Gattringer, Andreas; Thuiller, Wilfried Nature Climate Change, Vol. 2, Issue 8 https://doi.org/10.1038/nclimate1514	journal	May 2012
Pearl millet genomic vulnerability to climate change in West Africa highlights the need for regional collaboration Rhoné, Bénédicte; Defrance, Dimitri; Berthouly-Salazar, Cécile Nature Communications, Vol. 11, Issue 1 https://doi.org/10.1038/s41467-020-19066-4	journal	October 2020
Life history, climate and biogeography interactively affect worldwide genetic diversity of plant and animal populations De Kort, H.; Prunier, J. G.; Ducatez, S. Nature Communications, Vol. 12, Issue 1 https://doi.org/10.1038/s41467-021-20958-2	journal	January 2021
Elevated extinction risk of cacti under climate change Pillet, Michiel; Goettsch, Barbara; Merow, Cory Nature Plants, Vol. 8, Issue 4 https://doi.org/10.1038/s41477-022-01130-0	journal	April 2022
Global habitat loss and extinction risk of terrestrial vertebrates under future land-use-change scenarios Powers, Ryan P.; Jetz, Walter Nature Climate Change, Vol. 9, Issue 4 https://doi.org/10.1038/s41558-019-0406-z	journal	March 2019
Maladaptation, migration and extirpation fuel climate change risk in a forest tree species Gougherty, Andrew V.; Keller, Stephen R.; Fitzpatrick, Matthew C. Nature Climate Change, Vol. 11, Issue 2 https://doi.org/10.1038/s41558-020-00968-6	journal	January 2021
Genomic basis and evolutionary potential for extreme drought adaptation in Arabidopsis thaliana Exposito-Alonso, Moises; Vasseur, François; Ding, Wei Nature Ecology & Evolution, Vol. 2, Issue 2 https://doi.org/10.1038/s41559-017-0423-0	journal	December 2017
Global dataset shows geography and life form predict modern plant extinction and rediscovery Humphreys, Aelys M.; Govaerts, Rafaël; Ficinski, Sarah Z. Nature Ecology & Evolution, Vol. 3, Issue 7 https://doi.org/10.1038/s41559-019-0906-2	journal	June 2019
Opportunities and challenges of macrogenetic studies Leigh, Deborah M.; van Rees, Charles B.; Millette, Katie L. Nature Reviews Genetics, Vol. 22, Issue 12 https://doi.org/10.1038/s41576-021-00394-0	journal	August 2021
Natural selection on the Arabidopsis thaliana genome in present and future climates Exposito-Alonso, Moises; Burbano, Hernán A.; Bossdorf, Oliver Nature, Vol. 573, Issue 7772 https://doi.org/10.1038/s41586-019-1520-9	journal	August 2019
Genomic mechanisms of climate adaptation in polyploid bioenergy switchgrass Lovell, John T.; MacQueen, Alice H.; Mamidi, Sujan Nature, Vol. 590, Issue 7846 https://doi.org/10.1038/s41586-020-03127-1	journal	January 2021
More losses than gains during one century of plant biodiversity change in Germany Jandt, Ute; Bruelheide, Helge; Jansen, Florian Nature, Vol. 611, Issue 7936 https://doi.org/10.1038/s41586-022-05320-w	journal	October 2022
Climate change threats to plant diversity in Europe Thuiller, W.; Lavorel, S.; Araujo, M. B. Proceedings of the National Academy of Sciences, Vol. 102, Issue 23 https://doi.org/10.1073/pnas.0409902102	journal	May 2005
Vertebrates on the brink as indicators of biological annihilation and the sixth mass extinction Ceballos, Gerardo; Ehrlich, Paul R.; Raven, Peter H. Proceedings of the National Academy of Sciences, Vol. 117, Issue 24 https://doi.org/10.1073/pnas.1922686117	journal	June 2020
The crucial role of genome-wide genetic variation in conservation Kardos, Marty; Armstrong, Ellie E.; Fitzpatrick, Sarah W. Proceedings of the National Academy of Sciences, Vol. 118, Issue 48 https://doi.org/10.1073/pnas.2104642118	journal	November 2021
Understanding Maladaptation by Uniting Ecological and Evolutionary Perspectives Brady, Steven P.; Bolnick, Daniel I.; Barrett, Rowan D. H. The American Naturalist, Vol. 194, Issue 4 https://doi.org/10.1086/705020	journal	October 2019
Geographic patterns of genomic diversity and structure in the C4 grass Panicum hallii across its natural distribution Palacio-Mejía, Juan Diego; Grabowski, Paul P.; Ortiz, Edgardo M. AoB PLANTS, Vol. 13, Issue 2 https://doi.org/10.1093/aobpla/plab002	journal	January 2021
Coding for Life: Designing a Platform for Projecting and Protecting Global Biodiversity Urban, Mark C.; Travis, Justin M. J.; Zurell, Damaris BioScience, Vol. 72, Issue 1 https://doi.org/10.1093/biosci/biab099	journal	October 2021
Genotype–environment associations to reveal the molecular basis of environmental adaptation Lasky, Jesse R.; Josephs, Emily B.; Morris, Geoffrey P. The Plant Cell, Vol. 35, Issue 1 https://doi.org/10.1093/plcell/koac267	journal	August 2022
Experimental support for genomic prediction of climate maladaptation using the machine learning approach Gradient Forests Fitzpatrick, Matthew C.; Chhatre, Vikram E.; Soolanayakanahally, Raju Y. Molecular Ecology Resources, Vol. 21, Issue 8 https://doi.org/10.1111/1755-0998.13374	journal	March 2021
Exposure of mammal genetic diversity to mid‐21st century global change Theodoridis, Spyros; Rahbek, Carsten; Nogues‐Bravo, David Ecography, Vol. 44, Issue 6 https://doi.org/10.1111/ecog.05588	journal	March 2021
Species distribution models rarely predict the biology of real populations A. Lee‐Yaw, Julie; L. McCune, Jenny; Pironon, Samuel Ecography, Vol. 2022, Issue 6 https://doi.org/10.1111/ecog.05877	journal	December 2021
No consistent effects of humans on animal genetic diversity worldwide Millette, Katie L.; Fugère, Vincent; Debyser, Chloé Ecology Letters, Vol. 23, Issue 1 https://doi.org/10.1111/ele.13394	journal	October 2019
Estimated six per cent loss of genetic variation in wild populations since the industrial revolution Leigh, Deborah M.; Hendry, Andrew P.; Vázquez‐Domínguez, Ella Evolutionary Applications, Vol. 12, Issue 8 https://doi.org/10.1111/eva.12810	journal	June 2019
Evaluating genomic data for management of local adaptation in a changing climate: A lodgepole pine case study Mahony, Colin R.; MacLachlan, Ian R.; Lind, Brandon M. Evolutionary Applications, Vol. 13, Issue 1 https://doi.org/10.1111/eva.12871	journal	September 2019
Prospects and limitations of genomic offset in conservation management Rellstab, Christian; Dauphin, Benjamin; Exposito‐Alonso, Moises Evolutionary Applications, Vol. 14, Issue 5 https://doi.org/10.1111/eva.13205	journal	March 2021
Adaptation across geographic ranges is consistent with strong selection in marginal climates and legacies of range expansion Bontrager, Megan; Usui, Takuji; Lee‐Yaw, Julie A. Evolution, Vol. 75, Issue 6 https://doi.org/10.1111/evo.14231	journal	May 2021
Reduced representation sequencing to understand the evolutionary history of Torrey pine ( Pinus torreyana parry) with implications for rare species conservation Di Santo, Lionel N.; Hoban, Sean; Parchman, Thomas L. Molecular Ecology, Vol. 31, Issue 18 https://doi.org/10.1111/mec.16615	journal	July 2022
Using herbaria to study global environmental change Lang, Patricia L. M.; Willems, Franziska M.; Scheepens, J. F. New Phytologist, Vol. 221, Issue 1 https://doi.org/10.1111/nph.15401	journal	August 2018
Natural selection and the predictability of evolution in Timema stick insects Nosil, Patrik; Villoutreix, Romain; de Carvalho, Clarissa F. Science, Vol. 359, Issue 6377 https://doi.org/10.1126/science.aap9125	journal	February 2018
Comment on “Genomic signals of selection predict climate-driven population declines in a migratory bird” Fitzpatrick, Matthew C.; Keller, Stephen R.; Lotterhos, Katie E. Science, Vol. 361, Issue 6401 https://doi.org/10.1126/science.aat7279	journal	August 2018
Direct observation of adaptive tracking on ecological time scales in Drosophila Rudman, Seth M.; Greenblum, Sharon I.; Rajpurohit, Subhash Science, Vol. 375, Issue 6586 https://doi.org/10.1126/science.abj7484	journal	March 2022
Genetic diversity loss in the Anthropocene Exposito-Alonso, Moises; Booker, Tom R.; Czech, Lucas Science, Vol. 377, Issue 6613 https://doi.org/10.1126/science.abn5642	journal	September 2022
What Do We Really Know About Adaptation at Range Edges? Angert, Amy L.; Bontrager, Megan G.; Ågren, Jon Annual Review of Ecology, Evolution, and Systematics, Vol. 51, Issue 1 https://doi.org/10.1146/annurev-ecolsys-012120-091002	journal	November 2020
Genomic Prediction of (Mal)Adaptation Across Current and Future Climatic Landscapes Capblancq, Thibaut; Fitzpatrick, Matthew C.; Bay, Rachael A. Annual Review of Ecology, Evolution, and Systematics, Vol. 51, Issue 1 https://doi.org/10.1146/annurev-ecolsys-020720-042553	journal	November 2020
Landscape genomic prediction for restoration of a Eucalyptus foundation species under climate change Supple, Megan Ann; Bragg, Jason G.; Broadhurst, Linda M. eLife, Vol. 7 https://doi.org/10.7554/eLife.31835	journal	April 2018

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60 APPLIED LIFE SCIENCES
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Understanding local plant extinctions before it is too late: bridging evolutionary genomics with global ecology

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