Pleistocene speciation and glacial refugia in a temperate freshwater biodiversity hotspot

Among temperate regions of the world, freshwater fish species richness is highest in the Central Highlands of eastern North America. Historical biogeographic and phylogeographic researchers have investigated mechanisms driving this exceptional diversity, yet the role of major climatic events, like Pleistocene glaciation, is incompletely characterized. In this study, we analyze genomic DNA sequence data sampled from populations of the widely distributed Gilt Darter, Percina evides Jordan & Copeland 1877, to reconstruct pre-glacial drainage patterns and assess the impact of Pleistocene glaciation on generating the high species diversity of eastern North American freshwater fishes. Phylogenomics, population genomic analyses, and evaluation of morphology delimit four species currently classified as P. evides. These species likely diverged via allopatric speciation among the disjunct regions of the Central Highlands driven by the onset of Pleistocene glaciation. Divergence times among ne..., , , # Data from: Pleistocene speciation and glacial refugia in a temperate freshwater biodiversity hotspot

[https://doi.org/10.5061/dryad.8gtht7701](https://doi.org/10.5061/dryad.8gtht7701)

## Description of the data and file structure

ddRAD and meristic data and associated analyses files

### File: dryad_submission_3.zip

#### File list

BPP

* Pevi_5sp.ctl
* Pevi_5sp.Imap.txt
* pevi_loci_BPP.csv

fastsimcoal2

* Pevi_MSFS.obs

meristic data

* P_evides_complex_meristic_data
* meristic data
* specimen info

SNAPP

* SNAPP_4-16-25.xml

VCFs

* branch_fastsimcoal.vcf
* branch_popgen_fst_pca.vcf

sNMF

* P_evides_popgen_structure.u.geno

### Folder Details

#### \"BPP\" folder

contains control file, loci file, and Imap file used for BPP and gdi analysis in standard format

#### \"Fastsimcoal2\" folder

contains observed site frequency spectrum file for fastsimcoal2 analysis in .obs file format

#### \"meristics\" folder

contains raw meristic count data tables and specimen information

**Merist...,