Pervasive tandem duplications and convergent evolution shape coral genomes

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Background Over the last decade, several coral genomes have been sequenced allowing a better understanding of these symbiotic organisms threatened by climate change. Scleractinian corals are reef builders and are central to coral reef ecosystems, providing habitat to a great diversity of species.

Results In the frame of the Tara Pacific expedition, we assemble two coral genomes, Porites lobata and Pocillopora cf. effusa, with vastly improved contiguity that allows us to study the functional organization of these genomes. We annotate their gene catalog and report a relatively higher gene number than that found in other public coral genome sequences, 43,000 and 32,000 genes, respectively. This finding is explained by a high number of tandemly duplicated genes, accounting for almost a third of the predicted genes. We show that these duplicated genes originate from multiple and distinct duplication events throughout the coral lineage. They contribute to the amplification of gene families, mostly related to the immune system and disease resistance, which we suggest to be functionally linked to coral host resilience.

Conclusions At large, we show the importance of duplicated genes to inform the biology of reef-building corals and provide novel avenues to understand and screen for differences in stress resilience.

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ISO 690NOEL, Benjamin, France DENOEUD, Alica ROUAN, Carol BUITRAGO-LÓPEZ, Laura CAPASSO, Julie POULAIN, Emilie BOISSIN, Mélanie POUSSE, Christian R. VOOLSTRA, Jean-Marc AURY, 2023. Pervasive tandem duplications and convergent evolution shape coral genomes. In: Genome Biology. BioMed Central. 2023, 24, 123. ISSN 1465-6906. eISSN 1474-760X. Available under: doi: 10.1186/s13059-023-02960-7
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@article{Noel2023Perva-67218,
  year={2023},
  doi={10.1186/s13059-023-02960-7},
  title={Pervasive tandem duplications and convergent evolution shape coral genomes},
  volume={24},
  issn={1465-6906},
  journal={Genome Biology},
  author={Noel, Benjamin and Denoeud, France and Rouan, Alica and Buitrago-López, Carol and Capasso, Laura and Poulain, Julie and Boissin, Emilie and Pousse, Mélanie and Voolstra, Christian R. and Aury, Jean-Marc},
  note={Article Number: 123}
}
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Over the last decade, several coral genomes have been sequenced allowing a better understanding of these symbiotic organisms threatened by climate change. Scleractinian corals are reef builders and are central to coral reef ecosystems, providing habitat to a great diversity of species.

Results
In the frame of the Tara Pacific expedition, we assemble two coral genomes, Porites lobata and Pocillopora cf. effusa, with vastly improved contiguity that allows us to study the functional organization of these genomes. We annotate their gene catalog and report a relatively higher gene number than that found in other public coral genome sequences, 43,000 and 32,000 genes, respectively. This finding is explained by a high number of tandemly duplicated genes, accounting for almost a third of the predicted genes. We show that these duplicated genes originate from multiple and distinct duplication events throughout the coral lineage. They contribute to the amplification of gene families, mostly related to the immune system and disease resistance, which we suggest to be functionally linked to coral host resilience.

Conclusions
At large, we show the importance of duplicated genes to inform the biology of reef-building corals and provide novel avenues to understand and screen for differences in stress resilience.</dcterms:abstract>
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