Table 2.
Genetic diversity indicators for ex situ and in situ samples.
| Indicator | Ex situ samples (n = 13)a | In situ samples (n = 13)a | P value |
|---|---|---|---|
| Number of polymorphic SNPsb | 61,789 (82.67%) | 59,510 (79.62%) | <0.0000 |
| Divided by MAF frequencyc | |||
| <1% | 20,496 (27.42%) | 19,087 (25.54%) | <0.0000 |
| 1–5% | 23,569 (31.54%) | 22,769 (30.46%) | |
| >5% | 17,724 (23.71%) | 17,654 (23.62%) | |
| He | 0.0781 | 0.0770 | 0.0720 |
| Ho | 0.0561 | 0.0562 | 0.7715 |
| Private allelesb | 15,229 (20.38%) | 12,950 (17.33%) | <0.0000 |
| Divided by MAF frequency | |||
| <1% | 10,341 (13.84%) | 8,551 (11.44%) | 0.0013 |
| 1–5% | 4,815 (6.44%) | 4,316 (5.77%) | |
| >5% | 73 (0.1%) | 83 (0.11%) | |
aEach sample combines the genotypes of ten single seedlings, individually genotyped.
bFrom a total of 74,739 SNPs in the complete dataset, after monomorphic SNPs for each of the two subgroups were removed. Percentages shown in parentheses are based on this figure.
cMAF per SNP were estimated based on the number of alleles present for that marker in the corresponding 130 genotypes of each subgroup.