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A novel probe set for the phylogenomics and evolution of RTA spiders

Cite this dataset

Zhang, Junxia et al. (2022). A novel probe set for the phylogenomics and evolution of RTA spiders [Dataset]. Dryad.


Spiders are important models for evolutionary studies of web building, sexual selection and adaptive radiation. The recent development of probes for UCE-based phylogenomic studies has shed light on the phylogeny and evolution of spiders. However, the two available UCE probe sets for spider phylogenomics (Spider and Arachnida probe sets) have relatively low capture efficiency within spiders and are not optimized for the RTA clade, a hyperdiverse lineage that is key to understanding the evolution and diversification of spiders. In this study, we sequenced 15 genomes of species in the RTA clade, and using eight reference genomes, we developed a new UCE probe set (41,845 probes targeting 3802 loci, labelled as the RTA probe set). The performance of the RTA probes in resolving the phylogeny of the RTA clade was compared with the Spider and Arachnida probes through an in-silico test on 19 genomes. We also tested the new probe set empirically on 28 spider species of major spider lineages. The results showed that the RTA probes recovered twice and four times as many loci as the other two probe sets, and the phylogeny from the RTA UCEs provided higher support for certain relationships. This newly developed UCE probe set shows higher capture efficiency empirically and is particularly advantageous for phylogenomic and evolutionary studies of RTA clade and jumping spiders.


National Natural Science Foundation of China, Award: 32070422

Hebei University, Award: Advanced Talents Incubation Program 521000981324