DOI: 10.5061/dryad.47d7wm397
title: Data for: Range and niche expansion through multiple interspecific hybridization - a genotyping by sequencing analysis of Cherleria (Caryophyllaceae)

description: Background: Cherleria (Caryophyllaceae) is a circumboreal genus that also
 occurs in the high mountains of the northern hemisphere. In this study, we
 focus on a clade that diversified in the European High Mountains, which
 was identified using nuclear ribosomal (nrDNA) sequence data in a previous
 study. With the nrDNA data, all but one species was monophyletic, with
 little sequence variation within most species. Here, we use genotyping by
 sequencing (GBS) data to determine whether the nrDNA data showed the full
 picture of the evolution in the genomes of these species. Results: The
 overall relationships found with the GBS data were congruent with those
 from the nrDNA study. Most of the species were still monophyletic and many
 of the same subclades were recovered, including a clade of three narrow
 endemic species from Greece and a clade of largely calcifuge species. The
 GBS data provided additional resolution within the two species with the
 best sampling, C. langii and C. laricifolia, with structure that was
 congruent with geography. In addition, the GBS data showed significant
 hybridization between several species, including species whose ranges did
 not currently overlap. Conclusions: The hybridization led us to
 hypothesize that lineages came in contact on the Balkan Peninsula after
 they diverged, even when those lineages are no longer present on the
 Balkan Peninsula. Hybridization may also have helped lineages expand their
 niches to colonize new substrates and different areas. Not only do
 genome-wide data provide increased phylogenetic resolution of difficult
 nodes, they also give evidence for a more complex evolutionary history
 than what can be depicted by a simple, branching phylogeny.
description: Most of the data are Genotyping by Sequencing data, gathered
 following the protocol of Elshire et al. (2011), modified following
 Dillenberger and Kadereit (2017).  The BamHI restriction enzyme was used
 to digest the DNA and gel extraction was used for size selection.  The
 data were analyzed using a modification of the RTD pipeline of Peterson et
 al. (2012), as described in Dillenberger and Kadereit (2017).  The scripts
 for the modification are on GitHub (https://github.com/abigail-Moore/GBS-analysis/).  Datasets, scripts, and results files involving these data are labeled GBS. Some of the data are nuclear ribosomal DNA sequence data from the internal transcribed spacer (ITS) and external transcribed spacer (ETS) regions.  Datasets and results files involving these data are labeled nrDNA. Some of the data are locality data.  The localities are a mixture of those the authors personally visited and those found on georeferenced herbarium specimens.  The identification of nearly all herbarium specimens (including all of them that came from regions where multiple species co-occurred) was verified before including them.
description: Details on the individual files are given in the ReadMe
 (README.txt). Details on the sampling localities,
 voucher information, and GenBank and NCBI SRA numbers for each individual
 are given in the voucher table (Voucher_Table.txt).