Five hidden species in a widespread European vertebrate: disentangling the alpine newt cryptic species radiation through genomic phylogeography

Sequencing of target capture data from genomic DNA from Mesotriton (Ichthyosaura) through the Newtcap protocol by de Visser et al. (NewtCap: an efficient target capture approach to boost genomic studies in Salamandridae (true salamanders and newts) (2025), https://doi.org/10.1101/2024.10.25.620290); library preparation through enzymatic shearing with the NEBnext Ultra II FS kit, targeting 300bp insert size, capture reactions using MyBaits v4.0 kit (Arbor Biosciences, MI, USA; Ref# 170210-32, Wielstra et al. 'Phylogenomics of the adaptive radiation of Triturus newts supports gradual ecological niche expansion towards an incrementally aquatic lifestyle' (2019) - https://doi.org/10.1016/j.ympev.2018.12.032). Data processing, PCA, admixture and introgression analyses, phylogenomics and molecular dating, and species distribution modeling.