Data for "Early signals of fragmentation of flat-tailed horned lizards in the Yuma Desert"
We generated double digest restriction-site associated DNA sequencing data for 175 individual flat-tailed horned lizards (FTHL; Phrynosoma mcallii) sampled from the Yuma Desert Management Area, AZ, USA, between 2000 and 2020. The objectives of this study were to assess population structure and barriers to gene flow, changes in genetic diversity over time, and the relationship between geography and genetic variation. This study serves as an initial population genomic assessment to inform FTHL management and long-term monitoring efforts.
Here, we provide the final set of 15,559 SNPs (in 141 individuals) output as a vcf file from the Stacks v. 2.60 populations module, after filtering the initial SNP set with Plink v. 1.9 (--mind 0.95 to remove samples with very high missingness, followed by --geno 0.25, --mind 0.5, and --maf 0.01). The vcf includes one SNP per locus (the --write-random-snp flag was used in populations). We have also included the population map used for processing genomic data with Stacks, as well as the UTM coordinates for samples included in the spatial analyses of population structure (those collected between 2018 and 2020).For inquiries regarding the contents of this dataset, please contact the Corresponding Author listed in the README.txt file. Administrative inquiries (e.g., removal requests, trouble downloading, etc.) can be directed to data-management@arizona.edu
