Cynthia Riginos , Iva Popovic, Zoe Meziere, Vhon Oliver Garcia, Ilha Byrne, Samantha M Howitt, Hisatake Ishida, Kevin R Bairos-Novak, Adriana Humanes, Hugo Scharfenstein, Thomas J Richards, Ethan J Briggs, Vanessa Clark, Chuan Lei, Mariam Khan, Katharine E Prata

Conservation and management of coral reef ecosystems will depend on accurate assessments of reef-building coral species diversity. However, the true diversity of corals may be obfuscated by the presence of cryptic species, which are likely much more pervasive than is currently recognised. Additionally, cryptic species may sometimes hybridize, resulting in gene introgression between species. Here, we investigate the prevalence of cryptic coral species via a structured literature review and find that over 50% of population genomic studies show evidence for divisions within taxonomically recognised species and that such closely-related taxa are often linked by gene flow. We find that cryptic taxa frequently segregate by environment, especially depth, and may differ by phenotypic characteristics including resilience to heat stress. This hidden biodiversity creates challenges for coral conservation and restoration planning that are not well appreciated, including hiding true population declines, biasing estimates for species’ phenotypic breadth, overestimating the resilience of species to stressors, yielding uncertainty in evolutionary dynamics inferred from past studies, and creating reproductive barriers that may limit mating between local and translocated corals. Increasing awareness that coral cryptic species with incomplete species boundaries are common and building this expectation into conservation and restoration plans is an important pathway forward. Rich opportunities for interdisciplinary collaboration among coral and speciation biologists could fill key knowledge gaps relevant to conservation. We detail recommendations for best practice and strategies for identifying cryptic taxa and hybrids and urge their consideration in all future studies on corals.