RT Journal Article
SR Electronic
T1 Sequencing, <em>de novo</em> assembly and annotation of the genome of the scleractinian coral, <em>Pocillopora acuta</em>
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 698688
DO 10.1101/698688
A1 Jeremie Vidal-Dupiol
A1 Cristian Chaparro
A1 Marine Pratlong
A1 Pierre Pontaroti
A1 Christoph Grunau
A1 Guillaume Mitta
YR 2019
UL http://biorxiv.org/content/early/2019/07/11/698688.abstract
AB Coral reefs are the most divers marine ecosystem. However, under the pressure of global changes and anthropogenic disturbances corals and coral reefs are declining worldwide. In order to better predict and understand the future of these organisms all the tools of modern biology are needed today. However, many NGS based approaches are not feasible in corals because of the lack of reference genomes. Therefore we have sequenced, de novo assembled, and annotated, the draft genome of one of the most studied coral species, Pocillopora acuta (ex damicornis). The sequencing strategy was based on four libraries with complementary insert size and sequencing depth (180pb, 100x; 3Kb, 25x; 8kb, 12x and 20 kb, 12x). The de novo assembly was performed with Platanus (352 Mb; 25,553 scaffolds; N50 171,375 bp). 36,140 genes were annotated by RNA-seq data and 64,558 by AUGUSTUS (Hidden-Markov model). Gene functions were predicted through Blast and orthology based approaches. This new genomic resource will enable the development of a large array of genome wide studies but also shows that the de novo assembly of a coral genome is now technically feasible and economically realistic.