Abstract
Coral reefs are increasingly threatened by marine heatwaves, prompting the need for proactive interventions that enhance coral thermal tolerance. Assisted evolution, which aims to accelerate natural adaptation rates, has emerged as a promising approach. However, programmes of assisted evolution must outpace the escalating frequency and intensity of marine heatwaves. Here, we present a Roadmap for accelerating progress towards using assisted evolution to enhance coral thermal tolerance. We highlight advances in coral biology across cellular, organismal, and ecological scales that support the feasibility of assisted evolution in coral populations. We compare current experimental gains in thermal tolerance via assisted evolution with projected temperatures, finding that these are unlikely to keep pace with predicted climate change. We identify key knowledge gaps that hinder timely development of assisted evolution and propose a comprehensive research agenda to address these gaps. This agenda will be catalysed by large-scale, multi-institutional field hubs increasing experimental scope and statistical power, support for long-term research at these hubs, spanning coral generations, and development and application of methodologies that safeguard broodstock and experimental corals from disturbances. By implementing these proposals, scientists can realize the potential of assisted evolution and help to safeguard a future for coral reefs.
This is a preview of subscription content, access via your institution
Access options
Access through your institution
Subscribe to this journal
Receive 12 digital issues and online access to articles
$119.00 per year
only $9.92 per issue
Buy this article
- Purchase on SpringerLink
- Instant access to the full article PDF.
USD 39.95
Prices may be subject to local taxes which are calculated during checkout
Similar content being viewed by others
Elucidating gene expression adaptation of phylogenetically divergent coral holobionts under heat stress
No apparent trade-offs associated with heat tolerance in a reef-building coral
Experimental considerations of acute heat stress assays to quantify coral thermal tolerance
References
Costanza, R. et al. Changes in the global value of ecosystem services. Glob. Environ. Change 26, 152–158 (2014).
Google Scholar
Souter, D. et al. Status of Coral Reefs of the World: 2020 Report (Global Coral Reef Monitoring Network (GCRMN)/International Coral Reef Initiative (ICRI), 2021).
Fisher, R. et al. Species richness on coral reefs and the pursuit of convergent global estimates. Curr. Biol. 25, 500–505 (2015).
Google Scholar
Hughes, T. P. et al. Spatial and temporal patterns of mass bleaching of corals in the Anthropocene. Science 359, 80–83 (2018).
Google Scholar
Duarte, C. M. et al. Layering solutions to conserve tropical coral reefs in crisis. Nat. Rev. Biodivers. 1, 788–805 (2025).
Google Scholar
Bistline, J. et al. Emissions and energy impacts of the Inflation Reduction Act. Science 380, 1324–1327 (2023).
Google Scholar
Tollefson, J. Earth breaches 1.5 °C climate limit for the first time: what does it mean? Nature 637, 769–770 (2025).
Google Scholar
Palazzo Corner, S. et al. The Zero Emissions Commitment and climate stabilization. Front. Sci. https://doi.org/10.3389/fsci.2023.1170744 (2023).
National Academies of Sciences, Engineering and Medicine. A Decision Framework for Interventions to Increase the Persistence and Resilience of Coral Reefs (The National Academies Press, 2019).
Neely, K. L. et al. Too hot to handle? The impact of the 2023 marine heatwave on Florida Keys coral. Front. Mar. Sci. 11, 1489273 (2024).
Google Scholar
McWhorter, J. K. et al. The importance of 1.5 degrees C warming for the Great Barrier Reef. Glob. Change Biol. https://doi.org/10.1111/gcb.15994 (2021).
Google Scholar
Lachs, L. et al. Natural selection could determine whether Acropora corals persist under expected climate change. Science 386, 1289–1294 (2024).
Google Scholar
van Oppen, M. J., Oliver, J. K., Putnam, H. M. & Gates, R. D. Building coral reef resilience through assisted evolution. Proc. Natl Acad. Sci. USA 112, 2307–2313 (2015).
Google Scholar
Edwards, A., Guest, J. & Humanes, A. Rehabilitating coral reefs in the Anthropocene. Curr. Biol. 34, R399–R406 (2024).
Google Scholar
Haley, N., Donner, R., Merrett, K., Miller, M. & Senior, K. Selective breeding for disease-resistant PRNP variants to manage chronic wasting disease in farmed whitetail deer. Genes 12, 1396 (2021).
Google Scholar
Hansen, P. J. Physiological and cellular adaptations of zebu cattle to thermal stress. Anim. Reprod. Sci. 82, 349–360 (2004).
Google Scholar
Langridge, P. & Reynolds, M. Breeding for drought and heat tolerance in wheat. Theor. Appl. Genet. 134, 1753–1769 (2021).
Google Scholar
Yan, Y., Aumann, R. A., HÄCker, I. & Schetelig, M. F. CRISPR-based genetic control strategies for insect pests. J. Integr. Agric. 22, 651–668 (2023).
Google Scholar
Hoffmann, A. A. et al. Successful establishment of Wolbachia in Aedes populations to suppress dengue transmission. Nature 476, 454–457 (2011).
Google Scholar
Postma, E., Visser, J. & Van Noordwijk, A. J. Strong artificial selection in the wild results in predicted small evolutionary change. J. Evol. Biol. 20, 1823–1832 (2007).
Google Scholar
Flux, J. & Flux, M. Artificial selection and gene flow in wild starlings, Sturnus vulgaris. Naturwissenschaften 69, 96–97 (1982).
Google Scholar
Kvalnes, T. et al. Reversal of response to artificial selection on body size in a wild passerine. Evolution 71, 2062–2079 (2017).
Google Scholar
Pepke, M. L. et al. Artificial size selection experiment reveals telomere length dynamics and fitness consequences in a wild passerine. Mol. Ecol. 31, 6224–6238 (2022).
Google Scholar
MacLachlan, I. R. et al. Genome-wide shifts in climate-related variation underpin responses to selective breeding in a widespread conifer. Proc. Natl Acad. Sci. USA 118, e2016900118 (2021).
Google Scholar
Harley, E. H., Knight, M. H., Lardner, C., Wooding, B. & Gregor, M. The quagga project: progress over 20 years of selective breeding. South Afr. J. Wildl. Res. 39, 155–163 (2009).
Google Scholar
Cipollini, M., Dingley, N. R., Felch, P. & Maddox, C. Evaluation of phenotypic traits and blight-resistance in an American chestnut backcross orchard in Georgia. Glob. Ecol. Conserv. 10, 1–8 (2017).
Rohwer, F., Seguritan, V., Azam, F. & Knowlton, N. Diversity and distribution of coral-associated bacteria. Mar. Ecol. Prog. Ser. 243, 1–10 (2002).
Google Scholar
Huggett, M. J. & Apprill, A. Coral microbiome database: integration of sequences reveals high diversity and relatedness of coral-associated microbes. Environ. Microbiol. Rep. 11, 372–385 (2019).
Google Scholar
Radecker, N. et al. Heat stress destabilizes symbiotic nutrient cycling in corals. Proc. Natl Acad. Sci. USA 118, e2022653118 (2021).
Google Scholar
Quigley, K. M., Baker, A., Coffroth, M., Willis, B. L. & van Oppen, M. J. in Coral Bleaching: Patterns, Processes, Causes and Consequences (eds van Oppen, M. J. H. & Lough, J. M.) 111–151 (Springer, 2018).
Baird, A. H., Bhagooli, R., Ralph, P. J. & Takahashi, S. Coral bleaching: the role of the host. Trends Ecol. Evol. 24, 16–20 (2009).
Google Scholar
Satoh, N. et al. Color morphs of the coral, Acropora tenuis, show different responses to environmental stress and different expression profiles of fluorescent-protein genes. G3 11, jkab018 (2021).
Google Scholar
Yakovleva, I., Bhagooli, R., Takemura, A. & Hidaka, M. Differential susceptibility to oxidative stress of two scleractinian corals: antioxidant functioning of mycosporine-glycine. Comp. Biochem. Physiol. B Biochem. Mol. Biol. 139, 721–730 (2004).
Google Scholar
Krueger, T. et al. Differential coral bleaching — contrasting the activity and response of enzymatic antioxidants in symbiotic partners under thermal stress. Comp. Biochem. Physiol. A Mol. Integr. Physiol. 190, 15–25 (2015).
Google Scholar
Grottoli, A. G., Rodrigues, L. J. & Palardy, J. E. Heterotrophic plasticity and resilience in bleached corals. Nature 440, 1186–1189 (2006).
Google Scholar
Ziegler, M., Seneca, F. O., Yum, L. K., Palumbi, S. R. & Voolstra, C. R. Bacterial community dynamics are linked to patterns of coral heat tolerance. Nat. Commun. 8, 14213 (2017).
Google Scholar
Santoro, E. P. et al. Coral microbiome manipulation elicits metabolic and genetic restructuring to mitigate heat stress and evade mortality. Sci. Adv. 7, 15 (2021).
Google Scholar
Peixoto, R. S., Rosado, P. M., de Assis Leite, D. C., Rosado, A. S. & Bourne, D. G. Beneficial microorganisms for corals (BMC): proposed mechanisms for coral health and resilience. Front. Microbiol. 8, 341 (2017).
Google Scholar
Loya, Y., Sakai, K., Nakano, Y., Sambali, H. & van Woesik, R. Coral bleaching: the winners and the losers. Ecol. Lett. 4, 122–131 (2001).
Google Scholar
Marshall, P. A. & Baird, A. H. Bleaching of corals on the Great Barrier Reef: differential susceptibilities among taxa. Coral Reefs 19, 155–163 (2000).
Google Scholar
Humanes, A. et al. Within-population variability in coral heat tolerance indicates climate adaptation potential. Proc. R. Soc. B 289, 20220872 (2022).
Google Scholar
Howells, E. J. et al. Coral thermal tolerance shaped by local adaptation of photosymbionts. Nat. Clim. Change 2, 116–120 (2012).
Google Scholar
Palumbi, S. R., Barshis, D. J., Traylor-Knowles, N. & Bay, R. A. Mechanisms of reef coral resistance to future climate change. Science 344, 895–898 (2014).
Google Scholar
Maynard, J. A., Anthony, K. R. N., Marshall, P. A. & Masiri, I. Major bleaching events can lead to increased thermal tolerance in corals. Mar. Biol. 155, 173–182 (2008).
Google Scholar
Hughes, T. P. et al. Emergent properties in the responses of tropical corals to recurrent climate extremes. Curr. Biol. https://doi.org/10.1016/j.cub.2021.10.046 (2021).
Google Scholar
Guest, J. R. et al. Contrasting patterns of coral bleaching susceptibility in 2010 suggest an adaptive response to thermal stress. PLoS ONE 7, e33353 (2012).
Google Scholar
Lachs, L. et al. Emergent increase in coral thermal tolerance reduces mass bleaching under climate change. Nat. Commun. 14, 4939 (2023).
Google Scholar
Meyer, E. et al. Genetic variation in responses to a settlement cue and elevated temperature in the reef-building coral Acropora millepora. Mar. Ecol. Prog. Ser. 392, 81–92 (2009).
Google Scholar
Dixon, G. B. et al. Genomic determinants of coral heat tolerance across latitudes. Science 348, 1460–1462 (2015).
Google Scholar
Bay, R. A., Rose, N. H., Logan, C. A. & Palumbi, S. R. Genomic models predict successful coral adaptation if future ocean warming rates are reduced. Sci. Adv. 3, e1701413 (2017).
Google Scholar
Berkelmans, R. & van Oppen, M. J. The role of zooxanthellae in the thermal tolerance of corals: a ‘nugget of hope’ for coral reefs in an era of climate change. Proc. Biol. Sci. 273, 2305–2312 (2006).
Palacio-Castro, A. M. et al. Increased dominance of heat-tolerant symbionts creates resilient coral reefs in near-term ocean warming. Proc. Natl Acad. Sci. USA 120, e2202388120 (2023).
Google Scholar
Naugle, M. et al. Rapid heat stress assays predict survivors of coral bleaching. Preprint at Research Square https://doi.org/10.21203/rs.3.rs-7863661/v1 (2025).
Buerger, P. et al. Heat-evolved microalgal symbionts increase coral bleaching tolerance. Sci. Adv. 6, eaba2498 (2020).
Google Scholar
Scharfenstein, H. J. et al. Chemical mutagenesis and thermal selection of coral photosymbionts induce adaptation to heat stress with trait trade-offs. Evol. Appl. 16, 1549–1567 (2023).
Google Scholar
Schoepf, V., Sanderson, H. & Larcombe, E. Coral heat tolerance under variable temperatures: effects of different variability regimes and past environmental history vs. current exposure. Limnol. Oceanogr. 67, 404–418 (2021).
Google Scholar
Aranda Lastra, M. & van Oppen, M. J. in Coral Reef Conservation and Restoration in the Omics Age (eds van Oppen, M. J. H. & Aranda Lastra, M.) 241–242 (Springer, 2022).
Coffroth, M., Lasker, H. & Oliver, J. Global Ecological Consequences of the 1982–83 El Nino–Southern Oscillation. Elsevier Oceanography Series Vol. 52 (ed. Glynn, P. W.) 141–182 (Elsevier, 1990).
Humanes, A. et al. Selective breeding enhances coral heat tolerance to marine heatwaves. Nat. Commun. 15, 8703 (2024).
Google Scholar
Armstrong, K. C. et al. Fine-scale geographic variation of Cladocopium in Acropora hyacinthus across the Palauan Archipelago. Ecol. Evol. 14, e70650 (2024).
Google Scholar
Fogarty, N. D. Caribbean acroporid coral hybrids are viable across life history stages. Mar. Ecol. Prog. Ser. 446, 145–159 (2012).
Google Scholar
Chan, W. Y., Peplow, L. M., Menéndez, P., Hoffmann, A. A. & van Oppen, M. J. H. Interspecific hybridization may provide novel opportunities for coral reef restoration. Front. Mar. Sci. https://doi.org/10.3389/fmars.2018.00160 (2018).
Chan, W. Y., Peplow, L. M. & van Oppen, M. J. H. Interspecific gamete compatibility and hybrid larval fitness in reef-building corals: implications for coral reef restoration. Sci. Rep. 9, 4757 (2019).
Google Scholar
Hoffmann, A. A. & Sgro, C. M. Climate change and evolutionary adaptation. Nature 470, 479–485 (2011).
Google Scholar
Selmoni, O., Bay, L. K., Exposito-Alonso, M. & Cleves, P. A. Finding genes and pathways that underlie coral adaptation. Trends Genet. https://doi.org/10.1016/j.tig.2024.01.003 (2024).
Google Scholar
Fuller, Z. L. et al. Population genetics of the coral Acropora millepora: toward genomic prediction of bleaching. Science 369, eaba4674 (2020).
Google Scholar
Jin, Y. K. et al. Genetic markers for antioxidant capacity in a reef-building coral. Sci. Adv. 2, e1500842 (2016).
Google Scholar
Sampayo, E. M. et al. Coral symbioses under prolonged environmental change: living near tolerance range limits. Sci. Rep. 6, 36271 (2016).
Google Scholar
Scharfenstein, H. J. et al. Pushing the limits: expanding the temperature tolerance of a coral photosymbiont through differing selection regimes. N. Phytol. 243, 2130–2145 (2024).
Google Scholar
Chan, W. Y., Meyers, L., Rudd, D., Topa, S. H. & van Oppen, M. J. H. Heat-evolved algal symbionts enhance bleaching tolerance of adult corals without trade-off against growth. Glob. Change Biol. 29, 6945–6968 (2023).
Google Scholar
Chakravarti, L. J., Beltran, V. H. & van Oppen, M. J. H. Rapid thermal adaptation in photosymbionts of reef-building corals. Glob. Change Biol. 23, 4675–4688 (2017).
Google Scholar
Martell, H. A. Thermal priming and bleaching hormesis in the staghorn coral, Acropora cervicornis (Lamarck 1816). J. Exp. Mar. Biol. Ecol. https://doi.org/10.1016/j.jembe.2022.151820 (2023).
Hackerott, S., Martell, H. A. & Eirin-Lopez, J. M. Coral environmental memory: causes, mechanisms, and consequences for future reefs. Trends Ecol. Evol. 36, 1011–1023 (2021).
Google Scholar
DeMerlis, A. et al. Pre-exposure to a variable temperature treatment improves the response of Acropora cervicornis to acute thermal stress. Coral Reefs 41, 435–445 (2022).
Google Scholar
Brown, B. E., Dunne, R. P., Edwards, A. J., Sweet, M. J. & Phongsuwan, N. Decadal environmental ‘memory’ in a reef coral? Mar. Biol. 162, 479–483 (2015).
Google Scholar
Roik, A. et al. Trade-offs in a reef-building coral after six years of thermal acclimation. Sci. Total Environ. 949, 174589 (2024).
Google Scholar
Schoepf, V. et al. Annual coral bleaching and the long-term recovery capacity of coral. Proc. Biol. Sci. 282, 20151887 (2015).
Brown, K. T. & Barott, K. L. The costs and benefits of environmental memory for reef-building corals coping with recurring marine heatwaves. Integr. Comp. Biol. 62, 1748–1755 (2022).
Google Scholar
Rosado, P. M. et al. Marine probiotics: increasing coral resistance to bleaching through microbiome manipulation. ISME J. 13, 921–936 (2019).
Google Scholar
Li, J. et al. A coral-associated actinobacterium mitigates coral bleaching under heat stress. Environ. Microb. 18, 83 (2023).
Google Scholar
Bozec, Y.-M. et al. A rapidly closing window for coral persistence under global warming. Nat. Commun. 16, 9704 (2025).
Google Scholar
Sully, S., Burkepile, D. E., Donovan, M. K., Hodgson, G. & van Woesik, R. A global analysis of coral bleaching over the past two decades. Nat. Commun. 10, 1264 (2019).
Google Scholar
Madin, J. S. et al. The Coral Trait Database, a curated database of trait information for coral species from the global oceans. Sci. Data 3, 160017 (2016).
Google Scholar
Baird, A. H. et al. An Indo-Pacific coral spawning database. Sci. Data 8, 35 (2021).
Google Scholar
Bridge, T. C. L. et al. Incongruence between life-history traits and conservation status in reef corals. Coral Reefs 39, 271–279 (2020).
Google Scholar
Levins, R. Evolution in Changing Environments: Some Theoretical Explorations (Princeton Univ. Press, 1968).
Bay, L. K., Ortiz, J. C., Humanes, A. & Scharfenstein, H. J. Natural adaptation and assisted evolution of corals to heat stress. Australian Institute of Marine Science https://doi.org/10.25845/45XX-0974 (2023).
Hughes, T. P. et al. Global warming transforms coral reef assemblages. Nature 556, 492–496 (2018).
Google Scholar
Voolstra, C. R. et al. Standardized short-term acute heat stress assays resolve historical differences in coral thermotolerance across microhabitat reef sites. Glob. Change Biol. https://doi.org/10.1111/gcb.15148 (2020).
Google Scholar
Grottoli, A. G. et al. Increasing comparability among coral bleaching experiments. Ecol. Appl. 31, e02262 (2021).
Google Scholar
Leggat, W., Heron, S. F., Fordyce, A., Suggett, D. J. & Ainsworth, T. D. Experiment Degree Heating Week (eDHW) as a novel metric to reconcile and validate past and future global coral bleaching studies. J. Environ. Manag. 301, 113919 (2022).
Google Scholar
Caruso, C. et al. Short-term stress testing predicts subsequent natural bleaching variation. Coral Reefs 44, 399–409 (2025).
Google Scholar
Riginos, C. et al. Cryptic species and hybridisation in corals: challenges and opportunities for conservation and restoration. Peer Comm. J. 4, e25 (2024).
Google Scholar
Thornhill, D. J., Howells, E. J., Wham, D. C., Steury, T. D. & Santos, S. R. Population genetics of reef coral endosymbionts (Symbiodinium, Dinophyceae). Mol. Ecol. 26, 2640–2659 (2017).
Google Scholar
González-Pech, R. A. et al. Comparison of 15 dinoflagellate genomes reveals extensive sequence and structural divergence in family Symbiodiniaceae and genus Symbiodinium. BMC Biol. 19, 1–22 (2021).
Google Scholar
Davies, S. W. et al. Building consensus around the assessment and interpretation of Symbiodiniaceae diversity. PeerJ 11, e15023 (2023).
Google Scholar
LaJeunesse, T. C. et al. Systematic revision of Symbiodiniaceae highlights the antiquity and diversity of coral endosymbionts. Curr. Biol. 28, 2570–2580.e6 (2018).
Google Scholar
Parkinson, J. E., Peixoto, R. S. & Voolstra, C. R. in Coral Reef Microbiome (eds Peixoto, R. S. & Voolstra, C. R.) 9–23 (Springer, 2025).
Hume, B. C. C. et al. SymPortal: a novel analytical framework and platform for coral algal symbiont next-generation sequencing ITS2 profiling. Mol. Ecol. Resour. 19, 1063–1080 (2019).
Google Scholar
Pinzón, J. H., Devlin-Durante, M. K., Weber, M. X., Baums, I. B. & LaJeunesse, T. C. Microsatellite loci for Symbiodinium A3 (S. fitti) a common algal symbiont among Caribbean Acropora (stony corals) and Indo-Pacific giant clams (Tridacna). Conserv. Genet. Resour. 3, 45–47 (2011).
Google Scholar
Pettay, D. T. & Lajeunesse, T. C. Microsatellite loci for assessing genetic diversity, dispersal and clonality of coral symbionts in ‘stress-tolerant’ clade D Symbiodinium. Mol. Ecol. Resour. 9, 1022–1025 (2009).
Google Scholar
Epstein, H. E., Hernandez-Agreda, A., Starko, S., Baum, J. K. & Vega Thurber, R. Inconsistent patterns of microbial diversity and composition between highly similar sequencing protocols: a case study with reef-building corals. Front. Microbiol. 12, 740932 (2021).
Google Scholar
McCauley, M., Goulet, T. L., Jackson, C. R. & Loesgen, S. Systematic review of cnidarian microbiomes reveals insights into the structure, specificity, and fidelity of marine associations. Nat. Commun. 14, 4899 (2023).
Google Scholar
Silva, D. P., Epstein, H. E. & Vega Thurber, R. L. Best practices for generating and analyzing 16S rRNA amplicon data to track coral microbiome dynamics. Front. Microbiol. 13, 1007877 (2023).
Google Scholar
Mieog, J. C. et al. The roles and interactions of symbiont, host and environment in defining coral fitness. PLoS ONE 4, e6364 (2009).
Google Scholar
van Oppen, M. J. H. Mode of zooxanthella transmission does not affect zooxanthella diversity in acroporid corals. Mar. Biol. 144, 1–7 (2004).
Google Scholar
Baird, A. H., Guest, J. R. & Willis, B. L. Systematic and biogeographical patterns in the reproductive biology of scleractinian corals. Annu. Rev. Ecol. Evol. Syst. 40, 551–571 (2009).
Google Scholar
Baird, A. H., Cumbo, V. R., Leggat, W. & Rodriguez-Lanetty, M. Fidelity and flexibility in coral symbioses. Mar. Ecol. Prog. Ser. 347, 307–309 (2007).
Google Scholar
Lewis, A. M. et al. The diversity, distribution, and temporal stability of coral ‘zooxanthellae’ on a pacific reef: from the scale of individual colonies to across the host community. Coral Reefs 43, 841–856 (2024).
Google Scholar
Jones, A. M., Berkelmans, R., van Oppen, M. J. H., Mieog, J. C. & Sinclair, W. A community change in the algal endosymbionts of a scleractinian coral following a natural bleaching event: field evidence of acclimatization. Proc. R. Soc. B 275, 1359–1365 (2008).
Google Scholar
Manzello, D. P. et al. Role of host genetics and heat-tolerant algal symbionts in sustaining populations of the endangered coral Orbicella faveolata in the Florida Keys with ocean warming. Glob. Change Biol. 25, 1016–1031 (2019).
Google Scholar
Matsuda, S. B. et al. Temperature-mediated acquisition of rare heterologous symbionts promotes survival of coral larvae under ocean warming. Glob. Change Biol. 28, 2006–2025 (2022).
Google Scholar
Quigley, K. M., Roa, C. A., Beltran, V. H., Leggat, B. & Willis, B. L. Experimental evolution of the coral algal endosymbiont, Cladocopium goreaui: lessons learnt across a decade of stress experiments to enhance coral heat tolerance. Restor. Ecol. 29, 11 (2021).
Google Scholar
Scharfenstein, H. J., Chan, W. Y., Buerger, P., Humphrey, C. & van Oppen, M. J. H. Evidence for de novo acquisition of microalgal symbionts by bleached adult corals. ISME J. 16, 1676–1679 (2022).
Google Scholar
Nitschke, M. R. et al. The use of experimentally evolved coral photosymbionts for reef restoration. Trends Microbiol. https://doi.org/10.1016/j.tim.2024.05.008 (2024).
Google Scholar
Epstein, H. E., Torda, G., Munday, P. L. & van Oppen, M. J. H. Parental and early life stage environments drive establishment of bacterial and dinoflagellate communities in a common coral. ISME J. 13, 1635–1638 (2019).
Google Scholar
Damjanovic, K., Menendez, P., Blackall, L. L. & van Oppen, M. J. H. Early life stages of a common broadcast spawning coral associate with specific bacterial communities despite lack of internalized bacteria. Microb. Ecol. 79, 706–719 (2020).
Google Scholar
Xie, M. et al. Evolutionary genomics predicts probiotic persistence in corals. Preprint at bioRxiv https://doi.org/10.1101/2025.06.16.659728 (2026).
Causevic, S. et al. Niche availability and competitive loss by facilitation control proliferation of bacterial strains intended for soil microbiome interventions. Nat. Commun. 15, 2557 (2024).
Google Scholar
Doering, T. et al. Towards enhancing coral heat tolerance: a ‘microbiome transplantation’ treatment using inoculations of homogenized coral tissues. Microbiome 9, 16 (2021).
Google Scholar
Matz, M. V., Treml, E. A., Aglyamova, G. V. & Bay, L. K. Potential and limits for rapid genetic adaptation to warming in a Great Barrier Reef coral. PLoS Genet. 14, e1007220 (2018).
Google Scholar
Prata, K. et al. Some reef-building corals only disperse metres per generation. Proc. R. Soc. Lond. 291, 20231988 (2024).
Warner, P. A., Willis, B. L. & van Oppen, M. J. Sperm dispersal distances estimated by parentage analysis in a brooding scleractinian coral. Mol. Ecol. 25, 1398–1415 (2016).
Google Scholar
Baums, I. B., Devlin-Durante, M. K. & LaJeunesse, T. C. New insights into the dynamics between reef corals and their associated dinoflagellate endosymbionts from population genetic studies. Mol. Ecol. 23, 4203–4215 (2014).
Google Scholar
Howells, E. J., Willis, B. L., Bay, L. K. & van Oppen, M. J. Spatial and temporal genetic structure of Symbiodinium populations within a common reef-building coral on the Great Barrier Reef. Mol. Ecol. 22, 3693–3708 (2013).
Google Scholar
Metcalf, C. J. E. Invisible trade-offs: Van Noordwijk and de Jong and life-history evolution. Am. Natural. 187, iii–v (2016).
Google Scholar
Quigley, K. M., Alvarez-Roa, C., Raina, J.-B., Pernice, M. & van Oppen, M. J. H. Heat-evolved microalgal symbionts increase thermal bleaching tolerance of coral juveniles without a trade-off against growth. Coral Reefs 42, 1227–1232 (2023).
Google Scholar
Cunning, R., Gillette, P., Capo, T., Galvez, K. & Baker, A. Growth tradeoffs associated with thermotolerant symbionts in the coral Pocillopora damicornis are lost in warmer oceans. Coral Reefs 34, 155–160 (2015).
Google Scholar
Muller, E. M. et al. Heritable variation and lack of tradeoffs suggest adaptive capacity in Acropora cervicornis despite negative synergism under climate change scenarios. Proc. Biol. Sci. 288, 20210923 (2021).
Google Scholar
Ladd, M. C., Shantz, A. A., Bartels, E. & Burkepile, D. E. Thermal stress reveals a genotype-specific tradeoff between growth and tissue loss in restored Acropora cervicornis. Mar. Ecol. Prog. Ser. 572, 129–139 (2017).
Google Scholar
Lachs, L. et al. No apparent trade-offs associated with heat tolerance in a reef-building coral. Commun. Biol. 6, 400 (2023).
Google Scholar
Klein, A. M. et al. Algal symbiont genera but not coral host genotypes correlate to stony coral tissue loss disease susceptibility among Orbicella faveolata colonies in South Florida. Front. Mar. Sci. 11, 1287457 (2024).
Google Scholar
Little, A. F., van Oppen, M. J. H. & Willis, B. L. Flexibility in algal endosymbioses shapes growth in reef corals. Science 304, 1492–1494 (2004).
Google Scholar
Cantin, N. E., van Oppen, M. J. H., Willis, B. L., Mieog, J. C. & Negri, A. P. Juvenile corals can acquire more carbon from high-performance algal symbionts. Coral Reefs 28, 405–414 (2009).
Google Scholar
Jones, A. & Berkelmans, R. Potential costs of acclimatization to a warmer climate: growth of a reef coral with heat tolerant vs. sensitive symbiont types. PLoS ONE 5, e10437 (2010).
Google Scholar
Jones, A. M. & Berkelmans, R. Tradeoffs to thermal acclimation: energetics and reproduction of a reef coral with heat tolerant Symbiodinium type-D. J. Mar. Biol. 2011, 1–12 (2011).
Google Scholar
Allen-Waller, L. & Barott, K. L. Symbiotic dinoflagellates divert energy away from mutualism during coral bleaching recovery. Symbiosis 89, 173–186 (2023).
Google Scholar
Epstein, H. E. et al. Evidence for microbially-mediated tradeoffs between growth and defense throughout coral evolution. Anim. Microbiome 7, 1 (2025).
Google Scholar
Richards, T. J. et al. Moving beyond heritability in the search for coral adaptive potential. Glob. Change Biol. https://doi.org/10.1111/gcb.16719 (2023).
Google Scholar
Bairos-Novak, K. R., Hoogenboom, M. O., van Oppen, M. J. H. & Connolly, S. R. Coral adaptation to climate change: meta-analysis reveals high heritability across multiple traits. Glob. Change Biol. 27, 5694–5710 (2021).
Google Scholar
Visscher, P. M., Hill, W. G. & Wray, N. R. Heritability in the genomics era — concepts and misconceptions. Nat. Rev. Genet. 9, 255–266 (2008).
Google Scholar
Urban, M. C., Elphick, C. S. & Bolnick, D. I. Conservation should assume realistic adaptive capacities. Proc. Natl Acad. Sci. USA 123, e2415291123 (2026).
Google Scholar
Speare, K. E., Adam, T. C., Winslow, E. M., Lenihan, H. S. & Burkepile, D. E. Size-dependent mortality of corals during marine heatwave erodes recovery capacity of a coral reef. Glob. Change Biol. 28, 1342–1358 (2022).
Google Scholar
Wright, R. M. et al. Positive genetic associations among fitness traits support evolvability of a reef-building coral under multiple stressors. Glob. Change Biol. 25, 3294–3304 (2019).
Google Scholar
Rose, N. H. et al. Genomic analysis of distinct bleaching tolerances among cryptic coral species. Proc. Biol. Sci. 288, 20210678 (2021).
McRae, C. J. et al. Groundtruthing assessments of lab-based coral thermal tolerance with large-area imaging. Coral Reefs https://doi.org/10.1007/s00338-024-02582-w (2024).
Google Scholar
Marshall, D. J. Principles of experimental design for ecology and evolution. Ecol. Lett. 27, e14400 (2024).
Google Scholar
Voolstra, C. R. et al. Standardized methods to assess the impacts of thermal stress on coral reef marine life. Ann. Rev. Mar. Sci. 17, 193–226 (2025).
Google Scholar
Mumby, P. J. et al. Allee effects limit coral fertilization success. Proc. Natl Acad. Sci. USA 121, e2418314121 (2024).
Google Scholar
Lachs, L. et al. Demographic recovery of corals at a wave-exposed reef following catastrophic disturbance. Coral Reefs 43, 193–199 (2024).
Google Scholar
Edmunds, P. J. Vital rates of small reef corals are associated with variation in climate. Limnol. Oceanogr. 66, 901–913 (2020).
Google Scholar
Cant, J. et al. The projected degradation of subtropical coral assemblages by recurrent thermal stress. J. Anim. Ecol. 90, 233–247 (2021).
Google Scholar
Lachs, L. et al. Linking population size structure, heat stress and bleaching responses in a subtropical endemic coral. Coral Reefs 40, 777–790 (2021).
Google Scholar
Figueira, W. et al. Accuracy and precision of habitat structural complexity metrics derived from underwater photogrammetry. Remote Sens. 7, 16883–16900 (2015).
Google Scholar
Ferrari, R. et al. Quantifying multiscale habitat structural complexity: a cost-effective framework for underwater 3D modelling. Remote Sens. 8, 113 (2016).
Google Scholar
Dornelas, M. et al. Towards a macroscope: leveraging technology to transform the breadth, scale and resolution of macroecological data. Global Ecol. Biogeogr. 28, 1937–1948 (2019).
Google Scholar
van Woesik, R. et al. Coral-bleaching responses to climate change across biological scales. Glob. Change Biol. 28, 4229–4250 (2022).
Google Scholar
McLachlan, R. H., Price, J. T., Solomon, S. L. & Grottoli, A. G. Thirty years of coral heat-stress experiments: a review of methods. Coral Reefs https://doi.org/10.1007/s00338-020-01931-9 (2020).
Google Scholar
Heron, S. et al. Validation of reef-scale thermal stress satellite products for coral bleaching monitoring. Remote Sens. https://doi.org/10.3390/rs8010059 (2016).
Fitt, W. K., Brown, B. E., Warner, M. E. & Dunne, R. P. Coral bleaching: interpretation of thermal tolerance limits and thermal thresholds in tropical corals. Coral Reefs 20, 51–65 (2001).
Google Scholar
Cresswell, A. K. et al. Capturing fine-scale coral dynamics with a metacommunity modelling framework. Sci. Rep. 14, 24733 (2024).
Google Scholar
Ortiz, J. C., Bozec, Y.-M., Wolff, N. H., Doropoulos, C. & Mumby, P. J. Global disparity in the ecological benefits of reducing carbon emissions for coral reefs. Nat. Clim. Change 4, 1090–1094 (2014).
Google Scholar
Ortiz, J. C., González-Rivero, M. & Mumby, P. J. Can a thermally tolerant symbiont improve the future of Caribbean coral reefs? Glob. Change Biol. 19, 273–281 (2013).
Google Scholar
Rivera, H. E. et al. Palau’s warmest reefs harbor thermally tolerant corals that thrive across different habitats. Commun. Biol. 5, 1394 (2022).
Google Scholar
Gomez-Corrales, M. & Prada, C. Cryptic lineages respond differently to coral bleaching. Mol. Ecol. 29, 4265–4273 (2020).
Google Scholar
Vega Thurber, R. et al. Unified methods in collecting, preserving, and archiving coral bleaching and restoration specimens to increase sample utility and interdisciplinary collaboration. PeerJ 10, e14176 (2022).
Google Scholar
Poland, D. & Coffroth, M. A. Trans-generational specificity within a cnidarian–algal symbiosis. Coral Reefs 36, 119–129 (2017).
Google Scholar
Ali, A. et al. Recruit symbiosis establishment and Symbiodiniaceae composition influenced by adult corals and reef sediment. Coral Reefs 38, 405–415 (2019).
Google Scholar
Berenos, C., Ellis, P. A., Pilkington, J. G. & Pemberton, J. M. Estimating quantitative genetic parameters in wild populations: a comparison of pedigree and genomic approaches. Mol. Ecol. 23, 3434–3451 (2014).
Google Scholar
Kenkel, C. D. & Matz, M. V. Gene expression plasticity as a mechanism of coral adaptation to a variable environment. Nat. Ecol. Evol. 1, 0014 (2016).
Google Scholar
Drury, C. & Lirman, D. Genotype by environment interactions in coral bleaching. Proc. R. Soc. B Biol. Sci. 288, 20210177 (2021).
Google Scholar
Drury, C., Manzello, D. & Lirman, D. Genotype and local environment dynamically influence growth, disturbance response and survivorship in the threatened coral, Acropora cervicornis. PLoS ONE 12, e0174000 (2017).
Google Scholar
Castillo, K. D. et al. Gene expression plasticity facilitates acclimatization of a long-lived Caribbean coral across divergent reef environments. Sci. Rep. 14, 7859 (2024).
Google Scholar
Kawecki, T. J. & Ebert, D. Conceptual issues in local adaptation. Ecol. Lett. 7, 1225–1241 (2004).
Google Scholar
Chevin, L. M. & Hoffmann, A. A. Evolution of phenotypic plasticity in extreme environments. Philos. Trans. R. Soc. Lond. B Biol. Sci. 372, 20160138 (2017).
Google Scholar
Million, W. C. et al. Evidence for adaptive morphological plasticity in the Caribbean coral, Acropora cervicornis. Proc. Natl Acad. Sci. USA 119, e2203925119 (2022).
Google Scholar
Li, Y., Suontama, M., Burdon, R. D. & Dungey, H. S. Genotype by environment interactions in forest tree breeding: review of methodology and perspectives on research and application. Tree Genet. Genom. https://doi.org/10.1007/s11295-017-1144-x (2017).
Webster, M. S. et al. Who should pick the winners of climate change? Trends Ecol. Evol. 32, 167–173 (2017).
Google Scholar
Williams, C. G. & Hamrick, J. Elite populations for conifer breeding and gene conservation. Can. J. For. Res. 26, 453–461 (1996).
Google Scholar
Ramasubramanian, V. & Beavis, W. D. Strategies to assure optimal trade-offs among competing objectives for the genetic improvement of soybean. Front. Genet. 12, 675500 (2021).
Google Scholar
Hagedorn, M. et al. Assisted gene flow using cryopreserved sperm in critically endangered coral. Proc. Natl Acad. Sci. USA 118, e2110559118 (2021).
Google Scholar
Fernandez, J., Meuwissen, T. H., Toro, M. A. & Maki-Tanila, A. Management of genetic diversity in small farm animal populations. Animal 5, 1684–1698 (2011).
Google Scholar
Hobbs, R. J. et al. A decade of coral biobanking science in Australia — transitioning into applied reef restoration. Front. Mar. Sci. https://doi.org/10.3389/fmars.2022.960470 (2022).
McGaugh, S. E., Lorenz, A. J. & Flagel, L. E. The utility of genomic prediction models in evolutionary genetics. Proc. Biol. Sci. 288, 20210693 (2021).
Google Scholar
Meuwissen, T. H. E., Hayes, B. J. & Goddard, M. E. Prediction of total genetic value using genome-wide dense marker maps. Genetics 157, 1819–1829 (2001).
Google Scholar
Georges, M., Charlier, C. & Hayes, B. Harnessing genomic information for livestock improvement. Nat. Rev. Genet. 20, 135–156 (2019).
Google Scholar
Lorenzana, R. E. & Bernardo, R. Accuracy of genotypic value predictions for marker-based selection in biparental plant populations. Theor. Appl. Genet. 120, 151–161 (2009).
Google Scholar
Gienapp, P. et al. Genomic quantitative genetics to study evolution in the wild. Trends Ecol. Evol. 32, 897–908 (2017).
Google Scholar
Crossa, J. et al. Genomic selection in plant breeding: methods, models, and perspectives. Trends Plant Sci. 22, 961–975 (2017).
Google Scholar
Brault, C. et al. Across-population genomic prediction in grapevine opens up promising prospects for breeding. Hortic. Res. 9, uhac041 (2022).
Google Scholar
Figueroa, R. I., Howe-Kerr, L. I. & Correa, A. M. S. Direct evidence of sex and a hypothesis about meiosis in Symbiodiniaceae. Sci. Rep. 11, 18838 (2021).
Google Scholar
Acknowledgements
Our perspectives stemmed from a 3-day workshop, organized by CORDAP and held in Saudi Arabia at King Abdullah University of Science and Technology. Funding for the workshop attended by the authors of this manuscript was provided by the Global Coral R&D Accelerator Platform (CORDAP.org).
Author information
Authors and Affiliations
Contributions
All authors contributed substantially to discussion of the content. A.H. and J.C.O. conceived the structure of the manuscript and wrote the article. All authors reviewed and edited the manuscript before submission.
Corresponding authors
Ethics declarations
Competing interests
The authors declare no competing interests.
Peer review
Peer review information
Nature Reviews Biodiversity thanks the anonymous reviewers for their contribution to the peer review of this work.
Additional information
Publisher’s note Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.
Supplementary information
Supplementary information (download PDF )
Glossary
- Asexual propagation
Coral colonies arise from mitotic division of primary polyps and can also result from fragmentation via fission, release of asexual larvae or polyp bail-out.
- Breeding values
The average trait value of an individual’s offspring, with the variance among individuals providing an estimate of additive genetic variance.
- Broadcast spawning species
Corals that reproduce by releasing gametes into the water for external fertilization, in which larvae develop while drifting before settling on the reef substrate.
- Broad-sense heritability (H
2) The proportion of total phenotypic variance (VP) in a trait attributable to the total genetic variance (VG), including additive, dominance and epistatic effects (H2 = VG/VP).
- Brooding species
Corals that release sperm into the water, which travels to female corals and fertilizes eggs internally, producing larvae that are released and typically settle near the parent coral.
- Degree heating weeks
(DHWs). Measure of accumulated heat stress on coral reefs, calculated by summing the weekly temperature anomalies above the maximum monthly mean over a 12-week period.
- Dominance
Interaction between alleles at a single locus in which one allele (dominant) masks or suppresses the expression of another allele (recessive) in a heterozygous individual.
- Eco-evolutionary parameters
Variables that quantify interactions between ecological and evolutionary processes such as genetic variance, heritability, population size and vital rates.
- Epistasis
Interaction between genes at different loci, in which the expression of one gene masks or modifies the expression of another gene.
- Fitness
The ability of an organism to survive and reproduce and pass on its genes to the next generation, often quantified in terms of reproductive success.
- Genetic covariances
A measure of how two traits vary together owing to shared genetic influences, quantified as the correlation between their additive genetic contribution.
- Genetic gain
Improvement in the average performance of a population for a trait by selecting individuals with desirable genetics, measured as the generational increase in trait mean.
- Linkage disequilibrium
The nonrandom association of alleles at different loci, in which certain allele combinations occur more frequently than expected by chance.
- Narrow-sense heritability (h
2) The proportion of phenotypic variance (VP) arising from additive genetic variance (VA) of a trait (h2 = VA/VP), predicting trait’s response to selection.
- Pleiotropy
When a single gene influences multiple seemingly unrelated traits.
- Reference population
Group of individuals with both known genotypes and phenotypes that is used to train a statistical model.
- Sexual propagation
Production of genetically unique offspring through the fusion of male and female gametes (eggs and sperm).
- Spawn slicks
A floating aggregation of coral eggs and sperm formed on the ocean surface during mass spawning events when multiple coral species release gametes simultaneously.
- Thermal tolerance
The ability of an organism to survive thermal stress, in this case for corals to survive marine heatwave stress.
- Vital rates
Demographic metrics (fecundity, growth, mortality, immigration and emigration) that determine population dynamics and evolutionary trajectories.
Rights and permissions
Springer Nature or its licensor (e.g. a society or other partner) holds exclusive rights to this article under a publishing agreement with the author(s) or other rightsholder(s); author self-archiving of the accepted manuscript version of this article is solely governed by the terms of such publishing agreement and applicable law.
Reprints and permissions
About this article
Cite this article
Humanes, A., Bay, L., Riginos, C. et al. Accelerating coral assisted evolution to keep pace with climate change.
Nat. Rev. Biodivers. (2026). https://doi.org/10.1038/s44358-026-00147-z
Accepted:
Published:
Version of record:
DOI: https://doi.org/10.1038/s44358-026-00147-z
Source: Ecology - nature.com

