The draft genome sequence of the spider Dysdera silvatica (Araneae, Dysderidae): A valuable resource for functional and evolutionary genomic studies in chelicerates

We present the draft genome sequence of Dysdera silvatica, a nocturnal ground-dwelling spider from a genus that has undergone a remarkable adaptive radiation in the Canary Islands. The draft assembly was obtained using short (Illumina) and long (PaciBio and Nanopore) sequencing reads. Our de novo as...

Full description

Saved in:
Bibliographic Details
Published in:Gigascience 2019-08, Vol.8 (8)
Main Authors: Sánchez-Herrero, Jose Francisco, Frías-López, Cristina, Escuer, Paula, Hinojosa-Alvarez, Silvia, Arnedo, Miquel A, Sánchez-Gracia, Alejandro, Rozas, Julio
Format: Article
Language:English
Subjects:
Adaptation
Adaptive radiation
Amino acid sequence
Animals
Annotations
Assembly
Chromosome Mapping
Computational Biology - methods
Data Note
Doeringiella silvatica
Evolution
Evolution, Molecular
Extreme environments
Flow cytometry
Gene Ontology
Gene sequencing
Genome
Genome, Mitochondrial
Genomes
Genomics - methods
High-Throughput Nucleotide Sequencing
Molecular Sequence Annotation
Nucleotide sequence
Phenotype
Phylogeny
Proteins
Silk
Spiders
Spiders - classification
Spiders - genetics
Venom
Citations: Items that this one cites
Items that cite this one
Online Access:Get full text
Tags: Add Tag
No Tags, Be the first to tag this record!
Description
Summary:We present the draft genome sequence of Dysdera silvatica, a nocturnal ground-dwelling spider from a genus that has undergone a remarkable adaptive radiation in the Canary Islands. The draft assembly was obtained using short (Illumina) and long (PaciBio and Nanopore) sequencing reads. Our de novo assembly (1.36 Gb), which represents 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 and core eukaryotic genes, ranges from 90% to 96%. Functional annotations based on both ab initio and evidence-based information (including D. silvatica RNA sequencing) 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 Swiss-Prot 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 useful as a 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.
ISSN:2047-217X
2047-217X
DOI:10.1093/gigascience/giz099