Data from: "Identification of SNP markers for the endangered Ugandan red colobus (Procolobus rufomitratus tephrosceles) using RAD sequencing" in Genomic Resources Notes accepted 1 December 2014 to 31 January 2015

Despite dramatic growth in the field of primate genomics over the past decade, studies of primate population and conservation genomics in the wild have been hampered due to the difficulties inherent in studying non-model organisms and endangered species, such as lack of a reference genome and current challenges in de novo primate genome assembly. Here, we used Restriction-site Associated DNA (RAD) sequencing to develop a population-based SNP panel for the Ugandan red colobus (P. rufomitratus tephrosceles), which is a highly threatened monkey due to habitat loss. We analyzed blood samples from 24 individuals from Kibale National Park (Uganda) using single-end RAD sequencing. We obtained 70,773,857 reads, of which 58,814,906 passed the filtering steps. Using the program STACKS v. 1.11 we identified 113,376 loci, of which 50,558 were polymorphic and had a mean observed heterozygosity of 0.25. These data will be used to study the effects of habitat fragmentation on genomic diversity, dispersal, and disease transmission in this species. Our approach provides a good example of the potential of RAD sequencing in studies of wild primate populations. SNP information for loci identified using Restriction-site-associated DNA sequencing in the Ugandan red colobusThe file contains the SNP information for the loci identified using Restriction-site-associated DNA sequencing in the Ugandan red colobus. The text contains the following information: Locus (number assign to the locus by the program STACKS); Position (position of the SNP); SNP (identifies the change of the base in the SNP position); Consensus sequence (consensus sequence for the locus); number of individuals (number of individuals where the locus has been genotyped). It also includes the genotypes for all the individuals. If the individual could not be genotyped a "-" will appear. Some loci present more than one SNP, in those cases, the SNP information will appear in consecutive rows. For example locus 4 has SNPs in positions 86 (row number 2 in the table) and 89 (row number 3 in the table). In those cases the genotypes for the individuals always show the complete genotype. Heterozygotes are indicated with a "/". For example A/G is heterozygote for 1 SNP, CA/GG is heterozygote for 2 SNPs, GA/GG is heterozygote for 1 SNP out of 2.RedcolobuslociSNPinformation.xlsx