Supporting data for "The draft genome sequence of the spider Dysdera silvatica (Araneae, Dysderidae): A valuable resource for functional and evolutionary genomic studies in chelicerates"
Dataset type: Genomic, Transcriptomic
Data released on July 12, 2019
Sanchez-Herrero JF; Frías-López C; Escuer P; Hinojosa-Alvarez S; Arnedo MA; Sánchez-Gracia A; Rozas J (2019): Supporting data for "The draft genome sequence of the spider Dysdera silvatica (Araneae, Dysderidae): A valuable resource for functional and evolutionary genomic studies in chelicerates" GigaScience Database. http://dx.doi.org/10.5524/100628
We present the draft genome sequence of Dysdera silvatica, a nocturnal ground dwelling spider from a genus that undergone a remarkable adaptive radiation in the Canary Islands. The draft assembly was obtained using short (illumina) and long (PacBio and Nanopore) sequencing reads. Our de novo assembly (1.36 Gb), that represents the 80% of the genome size estimated by flow-cytometry (1.7 Gb), is constituted by a high fraction of interspersed repetitive elements (53.8%). The assembly completeness, using BUSCO (benchmarking universal single-copy orthologs) and CEG (Core Eukaryotic genes), ranges from 90% to 96%. Functional annotations based on both ab initio and evidence-based information (including D. silvatica RNA-seq) yielded a total of 48 619 protein-coding sequences, of which 36 398 (74.9%) have the molecular hallmark of known protein domains, or sequence similarity with swissprot sequences. The D. silvatica assembly is the first representative of the superfamily Dysderoidea, and just the second available genome of Synspermiata, one of the major evolutionary lineages of the “true spiders” (Araneomorphae). Dysderoids, which are known for their numerous instances of adaptation to underground environments, include some of the few examples of trophic specialization within spiders and are excellent models for the study of cryptic female choice. This resource, will be therefore very useful as an starting point to study fundamental evolutionary and functional questions, including the molecular bases of the adaptation to extreme environments and ecological shifts, as well of the origin and evolution of relevant spider traits, such as the venom and silk.
Additional details
Read the peer-reviewed publication(s):
(PubMed: 31430368)
Github links:
https://github.com/molevol-ub/Dysdera_silvatica_genome
Accessions (data generated as part of this study):
BioProject:
PRJNA475203
Sample ID | Taxonomic ID | Common Name | Genbank Name | Scientific Name | Sample Attributes |
---|---|---|---|---|---|
Dsil_NMH25907 | 477319 | Dysdera silvatica | Description:DNA isolate from the whole body of an ... Alternative accession-BioSample:SAMN09381545 Alternative accession-BioProject:PRJNA475203 ... + | ||
Dsil_NMH2605 | 477319 | Dysdera silvatica | Description:DNA isolate from the whole body of an ... Alternative accession-BioSample:SAMN09381544 Alternative accession-BioProject:PRJNA475203 ... + | ||
Dysdera silvatica ONT_1-3 gDNA | 477319 | Dysdera silvatica | Description:DNA isolate from the whole body of an ... Alternative accession-BioSample:SAMN11609372 Alternative accession-BioProject:PRJNA475203 ... + | ||
Dysdera silvatica ONT_4-5 gDNA | 477319 | Dysdera silvatica | Description:DNA isolate from the whole body of an ... Alternative accession-BioSample:SAMN11609373 Alternative accession-BioProject:PRJNA475203 ... + | ||
Dysdera silvatica pacbio gDNA | 477319 | Dysdera silvatica | Description:DNA isolate from the whole body of an ... Alternative accession-BioSample:SAMN09389329 Alternative accession-BioProject:PRJNA475203 ... + |