Table 1.
Measures of SNP-based genetic diversity within G. hirsutum germplasm groups
| Average MAF | |||||
|---|---|---|---|---|---|
| Group | N | Including monomorphic | Excluding monomorphic | Total polymorphic SNPs (proportion) | Genetic diversity (HE) |
| Gossypium spp. | 390 | 0.184 | 0.213 | 33507 (0.86) | 0.249 |
| G. hirsutum | 363 | 0.169 | 0.252 | 25829 (0.67) | 0.225 |
| G. hirsutum, improved | 292 | 0.145 | 0.242 | 23145 (0.60) | 0.195 |
| G. hirsutum, wild | 71 | 0.177 | 0.260 | 26299 (0.68) | 0.232 |
| G. hirsutum, improved, US | 185 | 0.141 | 0.241 | 22626 (0.58) | 0.190 |
| G. hirsutum, improved, other countries | 107 | 0.147 | 0.248 | 22961 (0.59) | 0.197 |
| G. hirsutum, improved, US, eastern | 48 | 0.132 | 0.234 | 21810 (0.56) | 0.177 |
| G. hirsutum, improved, US, mid-south | 48 | 0.111 | 0.222 | 19357 (0.50) | 0.151 |
| G. hirsutum, improved, US, plains | 43 | 0.135 | 0.245 | 21350 (0.55) | 0.183 |
| G. hirsutum, improved, US, western | 12 | 0.118 | 0.267 | 17093 (0.44) | 0.157 |
| G. hirsutum, improved, US, n/a | 34 | 0.142 | 0.231 | 23851 (0.62) | 0.193 |
Number of polymorphic SNPs (MAF ≥ 0.01) was calculated out of 38,822 SNPs. N sample size, MAF minor allele frequency