SNPs: Genetic diversity
The nucleotide diversity of phased UCE pseudo-haplotypes (1,664
alignments concatenated end-to-end) for all 58 unrelated mountain
treeshrews was 0.001732 (SE 0.000022). Using the SNP dataset with no
missing data, average individual heterozygosity for all 80 individuals
was 0.2297 (SD 0.027), and the average inbreeding coefficient
(F IS) was 0.0121 (SD 0.12). For the 58 unrelated
individuals, average heterozygosity was 0.2260 (SD 0.027), andF IS was 0.0187 (SD 0.12). Bartlett’s test
revealed that the variances in observed and expected heterozygosity were
not significantly different (K2 = 1.676,p = 0.195). Average F IS was higher on MK
than MT, but the difference was not significant (0.04 and 0.01
respectively, Welch two-sample t-test p = 0.2). Using the dataset
with 10% missing data, the probability of two individuals having
identical genotypes assuming siblings are present
(PIDsib ) was 1.54 × 10-199 .