| one publication added to basket [324482] | The genome sequence of the octocoral Paramuricea clavata – a key resource to study the impact of climate change in the Mediterranean
Ledoux, J.-B.; Cruz, F.; Gomez-Garrido, J.; Antoni, R.; Blanc, J.; Gómez-Gras, D.; López-Sendino, P.; Antunes, A.; Linares, C.; Gut, M.; Alioto, T.; Garrabou, J. (2019). The genome sequence of the octocoral Paramuricea clavata – a key resource to study the impact of climate change in the Mediterranean. bioRxiv 2019: 26p.+ tables. https://doi.org/10.1101/849158 In: bioRxiv: the preprint server for biology., more |  |
| Keywords | Paramuricea clavata (Risso, 1827) [WoRMS]
Marine/Coastal | | Author keywords | 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 |
| Authors | | Top | Dataset | - Ledoux, J.-B.
- Cruz, F.
- Gomez-Garrido, J.
- Antoni, R.
| - Blanc, J.
- Gómez-Gras, D.
- López-Sendino, P.
- Antunes, A.
| - Linares, C.
- Gut, M.
- Alioto, T.
- Garrabou, J.
|
| 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 and 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 hybrid assembly accounting for 712.4 Mb and 107,682 scaffolds. The contig and scaffold N50 are 15.85 Kb and 17.01 Kb, respectively. Despite of the low contiguity of the assembly, the gene completeness was relatively high, including 86% of the 978 metazoan genes contained in the metazoa_odb9 database. A total of 76,508 protein-coding genes and 85,763 transcripts 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, the genome of P. clavata will help to understand various aspects of its evolutionary ecology and to elaborate effective conservation plans such as active restoration actions to overcome the threats of global change. |
| Dataset | - Linares, Cristina; Figuerola, Laura; Gómez-Gras, Daniel; Pagès-Escolà, Marta; Olvera, Àngela, Aubach, Àlex; Amate, Roger; Figuerola, Blanca; Kersting, Diego; Ledoux, Jean-Baptiste; López-Sanz, Àngel; López-Sendino, Paula; Medrano, Alba; Garrabou, Joaquim; (2020); CorMedNet- Distribution and demographic data of habitat-forming invertebrate species from Mediterranean coralligenous assemblages between 1882 and 2019, more
|
|
