Genome analysis of the rice coral Montipora capitata

Scientific Reports
Alexander ShumakerDebashish Bhattacharya

Abstract

Corals comprise a biomineralizing cnidarian, dinoflagellate algal symbionts, and associated microbiome of prokaryotes and viruses. Ongoing efforts to conserve coral reefs by identifying the major stress response pathways and thereby laying the foundation to select resistant genotypes rely on a robust genomic foundation. Here we generated and analyzed a high quality long-read based ~886 Mbp nuclear genome assembly and transcriptome data from the dominant rice coral, Montipora capitata from Hawai'i. Our work provides insights into the architecture of coral genomes and shows how they differ in size and gene inventory, putatively due to population size variation. We describe a recent example of foreign gene acquisition via a bacterial gene transfer agent and illustrate the major pathways of stress response that can be used to predict regulatory components of the transcriptional networks in M. capitata. These genomic resources provide insights into the adaptive potential of these sessile, long-lived species in both natural and human influenced environments and facilitate functional and population genomic studies aimed at Hawaiian reef restoration and conservation.

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Citations

Jul 26, 2019·BMC Evolutionary Biology·Regina L CunhaRobert J Toonen
Jun 28, 2019·Genome Biology and Evolution·Martin HelmkampfMisaki Takabayashi
Aug 11, 2020·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·Madeleine J H van Oppen, Mónica Medina
Sep 3, 2020·PeerJ·Julia Van EttenDebashish Bhattacharya
Jan 17, 2020·The Journal of Heredity·Brian W BowenRobert J Toonen
Dec 29, 2019·Trends in Genetics : TIG·Phillip A ClevesDebashish Bhattacharya
Jul 13, 2021·Frontiers in Immunology·Madison A EmeryLaura D Mydlarz

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Methods Mentioned

BETA
PCR
GTPases
RNA-Seq
ubiquitination
environmental stress
transgenic

Software Mentioned

- Unzip
OrthoFinder
DESeq2
TargetP
BLAST2GO
Gene Model Mapper ( GeMoMa )
DESeq
MAFFT
BLAST
RNA

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