Genomic signatures in the coral holobiont reveal host adaptations driven by Holocene climate change and reef specific symbionts

Cooke, Ira, Ying, Hua, Forêt, Sylvain, Bongaerts, Pim, Strugnell, Jan M., Simakov, Oleg, Zhang, Jia, Field, Matt A., Rodriguez-Lanetty, Mauricio, Bell, Sara C., Bourne, David G., van Oppen, Madeleine J.H., Ragan, Mark A., and Miller, David J. (2020) Genomic signatures in the coral holobiont reveal host adaptations driven by Holocene climate change and reef specific symbionts. Science Advances, 6 (48). eabc6318.

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Abstract

Genetic signatures caused by demographic and adaptive processes during past climatic shifts can inform predictions of species’ responses to anthropogenic climate change. To identify these signatures in Acropora tenuis, a reef-building coral threatened by global warming, we first assembled the genome from long reads and then used shallow whole-genome resequencing of 150 colonies from the central inshore Great Barrier Reef to inform population genomic analyses. We identify population structure in the host that reflects a Pleistocene split, whereas photosymbiont differences between reefs most likely reflect contemporary (Holocene) conditions. Signatures of selection in the host were associated with genes linked to diverse processes including osmotic regulation, skeletal development, and the establishment and maintenance of symbiosis. Our results suggest that adaptation to post-glacial climate change in A. tenuis has involved selection on many genes, while differences in symbiont specificity between reefs appear to be unrelated to host population structure.

Item ID: 65221
Item Type: Article (Research - C1)
ISSN: 2375-2548
Copyright Information: Copyright © 2020 The Authors, some rights reserved; exclusive licensee American Association for the Advancement of Science. No claim to original U.S. Government Works. Distributed under a Creative Commons Attribution NonCommercial License 4.0 (CC BY-NC).
Funders: University of Queensland (UQ), Australian Institute of Marine Science (AIMS), Australian National University (ANU), Bioplatforms Australia, The Great Barrier Reef Foundation (GBRF), Great Barrier Reef Marine Park Authority (GBRMPA), James Cook University (JCU)
Projects and Grants: Queensland Government DSITIA Accelerate Partnerships award
Date Deposited: 01 Dec 2020 03:53
FoR Codes: 31 BIOLOGICAL SCIENCES > 3105 Genetics > 310509 Genomics @ 50%
31 BIOLOGICAL SCIENCES > 3105 Genetics > 310599 Genetics not elsewhere classified @ 50%
SEO Codes: 96 ENVIRONMENT > 9608 Flora, Fauna and Biodiversity > 960808 Marine Flora, Fauna and Biodiversity @ 100%
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