The impact of Pleistocene glacial cycles on the evolutionary diversification of the arctic-alpine <em>Silene acaulis</em> species complex
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Arctic-alpine species are highly sensitive to long-term temperature changes and associated glacial cycles due to their occurrence in cold environments to which they are adapted and spatially restricted. Unravelling their evolutionary responses to past climatic fluctuations can provide new insights into their diversification. In this study, we investigated the evolutionary history of the Silene acaulis species complex and how it was shaped by past glacial cycles. We assembled the first high-quality reference genome for S. acaulis and analyzed reduced representation sequencing data from 955 individuals spanning 132 populations across the Holarctic distribution range of these arctic-alpine cushion plants. We identified five evolutionary lineages and assessed their phylogeographical structure in relation to current subspecies classifications, refugia, and historic migration patterns. Phylogenetic dating revealed that lineage divergence largely coincided with repeated phases of glacial cooli..., , ### *README file associated with the study:* **Glacial cycles and adaptive divergence characterize the evolutionary history of the arctic-alpine** ***Silene acaulis*** **species complex** --- ## Summary This dataset includes: * Functional annotation of the *Silene acaulis* reference genome\ (NCBI BioProject: PRJNA1267970) * SNP datasets derived from ddRAD sequencing aligned to the reference genome * Input and output files for phylogenetic analysis using SNAPPER in BEAST --- ### Functional annotation of the reference genome (eggNOG-mapper output files) * `SilAcau_F_GE_1.1.anno.eggnog.emapper.annotations.xlsx`\ *Functional annotation of haplotype 1, *â-â = missing / not available data * `SilAcau_F_GE_1.2.anno.eggnog.emapper.annotations.xlsx`\ *Functional annotation of haplotype 2, *â-â = missing / not available data Variable description for .xlsx files (retrieved from [GitHub](https://github.com/eggnogdb/eggnog-mapper/wiki/eggNOG-mapper-v2.1.5-to-v2.1.13#user-cont...,
