Coral Reef Genomes

Genomic Resources for corals and other reef taxa

About us

The Marine Molecular Biology Group at James Cook University uses molecular tools to understand the evolution of marine organisms and how genes and gene products function to drive key processes in marine systems. It is a consortium of researchers including David Miller, Jan Strugnell, David Bourne, Peter Cowman, Norelle Daly and Ira Cooke

Most of our work focuses on keystone taxa in coral-reef systems and important fishery and aquaculture species including corals, sponges, reef fish, cephalopods, lobsters and abalone.

About the data

This site hosts genome assemblies and annotations generated by our group members and close collaborators. Public access is provided to genomes and genome tracks as much as possible, however some unpublished genomes and track data are private. Please contact us if you would like access to a particular resource. If you use data from this site in your research please cite the relevant publication

Contact Us

To discuss collaborative opportunities, please contact: David Miller, Ira Cooke, Jan Strugnell, David Bourne, Peter Cowman or Norelle Daly, using their respective JCU email addresses

For queries relating to the genome browsers on this site, or for information on who to contact regarding a specific genome please email Ira Cooke using the address below
Heliofungia actiniformis

Heliofungia actiniformis

Photograph: Casey Schmidt

Please be aware that this is an early draft assembly with basic gene models. Feel free to use information on individual loci in your research. If you would like to publish work based on the entire genome please contact us.

Hapalochlaena maculosa

Hapalochlaena maculosa

Photograph: Dr. Julian Finn. Copyright Museums Victoria / CC BY (Licensed as Attribution 4.0 International)

This genome is published. The relevant publication is;

Whitelaw, B.L., Cooke, I.R., Finn, J., da Fonseca, R.R., Ritschard, E.A., Gilbert, M.T.P., Simakov, O., Strugnell, J.M., 2020. Adaptive venom evolution and toxicity in octopods is driven by extensive novel gene formation, expansion, and loss. Gigascience 9.

Acropora millepora

Acropora millepora

Photograph: MDC Seamarc Maldives [CC BY-SA 4.0 (], from Wikimedia Commons

This genome is published and is now part of RefSeq. The relevant publication is;

Ying, Hua, David C. Hayward, Ira Cooke, Weiwen Wang, Aurelie Moya, Kirby R. Siemering, Susanne Sprungala, Eldon E. Ball, Sylvain ForĂȘt, and David J. Miller. 2019. The Whole Genome Sequence of the Coral Acropora Millepora. Genome Biology and Evolution

Acropora tenuis

Acropora tenuis

Photograph: Dr. Gergely Torda

This genome was sequenced by the Reef Future Genomics Consortium (ReFuGe 2020). The relevant publication is;

Cooke, I., Ying, H., ForĂȘt, S., Bongaerts, P., Strugnell, J.M., Simakov, O., Zhang, J., Field, M.A., Rodriguez-Lanetty, M., Bell, S.C., Bourne, D.G., van Oppen, M.J., Ragan, M.A., Miller, D.J., 2020. Genomic signatures in the coral holobiont reveal host adaptations driven by Holocene climate change and reef specific symbionts. Sci Adv 6.

Lobophytum pauciflorum

Photograph: Dr. Wiebke Wessels

Genomic data for the soft coral Lobophytum pauciflorum. Genome assembly and annotation for this species is a collaboration between James Cook University and Okinawa Institute of Science and Technology.