Data from: A suite of genetic markers useful in assessing wildcat (Felis silvestris ssp.) - domestic cat (Felis silvestris catus) admixture
O’Brien, Stephen J
Macdonald, David W
Published Aug 20, 2015 on Dryad.
Cite this dataset
Driscoll, Carlos; Yamaguchi, Nobuyuki; O’Brien, Stephen J; Macdonald, David W (2015). Data from: A suite of genetic markers useful in assessing wildcat (Felis silvestris ssp.) - domestic cat (Felis silvestris catus) admixture [Dataset]. Dryad. https://doi.org/10.5061/dryad.n40h2
The wildcat (Felis silvestris ssp.) is a conservation concern largely due to introgressive hybridization with its congener F. s. catus, the common domestic cat. Because of a recent divergence and entirely overlapping ranges, hybridization is common and pervasive between these taxa threatening the genetic integrity of remaining wildcat populations. Identifying pure wildcats for inclusion in conservation programs using current morphological discriminants is difficult because of gross similarity between them and the domestic, critically hampering conservation efforts. Here we present a vetted panel of microsatellite loci and mitochondrial polymorphisms informative for each of the five naturally evolved wildcat subspecies and the derived domestic cat. We also present reference genotypes for each assignment class. Together, these marker sets and corresponding reference genotypes allow for the development of a genetic rational for defining ‘units of conservation’ within a phylogenetically based taxonomy of the entire F. silvestris species complex. We anticipate this marker panel will allow conservators to assess genetic integrity and quantify admixture in managed wildcat populations and to be a starting point for more in-depth analysis of hybridization.
ST2 3 & 4
Supplementary Table 2: Mitochondrial sequence alignment showing variable sites. Supplementary Table 3: Synopsis alignment of Felis silvestris phylogenetically informative mitochondrial sites. Supplementary Table 4: Primer sequences for mitochondrial amplification of F. silvestris ssp. informative sites.
Supplementary Table 5: STR genotypes ascertained in range-wide survey.
Header rows indicate cat chromosome location of STR loci with distances given according to conventions used in PHASE (STEPHENS 2004). Alleles are indicated by base-pair length. Missing data is denoted by -9. Individual cats are listed by LGD code in column one. Refer to Supplemental Table 1 for additional information regarding provenance and taxonomic assignment. Data is provided for 77 loci, however only the 36 that amplified most completely across different runs were further characterized and used in published analysis (DRISCOLL et al. 2007). A limited examination of alternative locus combinations (data not shown) that include loci other than the published 36 indicates similar levels of performance. For future studies requiring the greatest genetic resolution these additional data could be considered.
Supplementary Table 6: Locus by locus tabulation of allele frequencies broken down by results of categorical genetic assignments.