The Genome Sequence of the Octocoral Paramuricea clavata – A Key Resource To Study the Impact of Climate Change in the Mediterranean. Issue 9 (1st September 2020)

• Record Type: Journal Article
• Authors: Ledoux, Jean-Baptiste; Cruz, Fernando; Gómez-Garrido, Jèssica; Antoni, Regina; Blanc, Julie; Gómez-Gras, Daniel; Kipson, Silvija; López-Sendino, Paula; Antunes, Agostinho; Linares, Cristina; Gut, Marta; Alioto, Tyler; Garrabou, Joaquim
• Is Part Of: G3. Volume 10:Issue 9(2020)
• Page Start: 2941
• Page End: 2952
• Publication Date: 2020-09-01
• Subjects: Paramuricea clavata -- octocoral -- temperate habitat-forming anthozoan -- mass mortality events -- global warming -- whole genome sequencing -- de novo assembly -- genome annotation -- Oxford Nanopore Technologies -- long read sequencing; Genetics -- Research -- Periodicals; Genomics -- Periodicals; Genetics; Genomics; Genes; Genetics -- Research; Genomics; Electronic journals; Periodical; Periodicals; Fulltext; Internet Resources; Periodicals; 572.8
• DOI: 10.1534/g3.120.401371
• Languages: English
• ISSNs: 2160-1836

Abstract

Abstract: The octocoral, Paramuricea clavata, is a habitat-forming anthozoan with a key ecological role in rocky benthic and biodiversity-rich communities in the Mediterranean and Eastern Atlantic. Shallow populations of P. clavata in the North-Western Mediterranean are severely affected by warming-induced mass mortality events (MMEs). These MMEs have differentially impacted individuals and populations of P. clavata ( i.e., varied levels of tissue necrosis and mortality rates) over thousands of kilometers of coastal areas. The eco-evolutionary processes, including genetic factors, contributing to these differential responses remain to be characterized. Here, we sequenced a P. clavata individual with short and long read technologies, producing 169.98 Gb of Illumina paired-end and 3.55 Gb of Oxford Nanopore Technologies (ONT) reads. We obtained a de novo genome assembly accounting for 607 Mb in 64, 145 scaffolds. The contig and scaffold N50s are 19.15 Kb and 23.92 Kb, respectively. Despite of the low contiguity of the assembly, its gene completeness is relatively high, including 75.8% complete and 9.4% fragmented genes out of the 978 metazoan genes contained in the metazoa_odb9 database. A total of 62, 652 protein-coding genes have been annotated. This assembly is one of the few octocoral genomes currently available. This is undoubtedly a valuable resource for characterizing the genetic bases of the differential responses to thermal stress and for the identification of thermo-resistant individuals and populations. Overall, having the genome of P. clavata will facilitate studies of various aspects of its evolutionary ecology and elaboration of effective conservation plans such as active restoration to overcome the threats of global change.