3.1 | Statistical Analysis and Genetic Diversity
A total library was obtained with 226,279,541 readings with good average
quality (Q-score ≥ 30), showing an optimal value (Q ≥ 30) throughout all
the sequences (101 bp). Quality only decreases in the last bp, around 75
bp. being selected for this study. 1,038 were selected for this study
according with our previously established parameters. Distribution of
SNPs minor allele frequencies (MAFs) are shown in Table 2. More than
96.92% of the SNPs for all sampled populations presented MAF values ≤
0.1, varying from 0.994 in Culimo to 0.969 in Viña del Mar/Valparaíso,
with MAF scores ranging up to MAF ≤ 0.4.
Expected heterozygosity values (HE ) were higher
than the observed values (HO ) for all
populations. The mean HO varied from 0.036 in
Culimo to 0.108 in Petorca, and the mean HEvaried from 0.086 in Culimo to 0.145 in Petorca, with an overallHO of 0.014 and an overallHE of 0.024, suggesting both a deficit of
heterozygotes. Inbreeding coefficient values
(FIS ) for all populations wereFIS >0 (overall value of 0.424),
varying from 0.177 in Viña del Mar/ Valparaíso to 0.586 in Culimo, which
also indicates a heterozygous deficit and high levels of inbreeding with
little or no random mating (Table 3). All FSTcomparisons between populations showed values above 0.049 and below
0.119, with a moderate difference, indicating a tendency of genetic
similarity between populations (Table 4). Nei’s genetic distance values
were lower than 0.003 in all populations, also indicating that the
populations may be genetically similar (Table 4).
Table 2. Frequency of SNPs by minor allele frequencies (MAF)
within the six population groups of Jubaea chilensis . (CUL)
Culimo, (PET) Petorca, (OCO) Ocoa, (VAV) Viña del Mar/Valparaíso, (COC)
Cocalán, (CAN) Candelaria.