Table 1 Table summarizing the number of accessions belonging to each varietal group and subpopulation based on evaluation with 36 SSRs, 1536 SNPs or 44,100 SNP markers and using different coefficients of ancestry to classify accessions into different groups: >60%, >80% and >90% ancestry was determined using STRUCTURE and PCA
Varietal group | Subpopulation | SSR classification >60% | IlluminaSNP.80% | 44 K SNP-group by struct 60% | 44 K SNP-group by struct 80% | 44 K SNP-group by struct 90% | 44 K SNP-group by PCA |
|---|---|---|---|---|---|---|---|
indica | aus | 59 | 57 | 60 | 57 | 49 | 59 |
indica | 95 | 86 | 91 | 85 | 76 | 90 | |
japonica | temperature japonica | 110 | 86 | 115 | 88 | 74 | 99 |
tropical japonica | 106 | 85 | 109 | 90 | 78 | 98 | |
aromatic (Group V) | 16 | 14 | 14 | 14 | 12 | 14 | |
admix | 34 | 91 | 34 | 89 | 134 | 63 | |
Not available | 3 | 4 | 0 | 0 | 0 | 0 | |
Total | 423 | 423 | 423 | 423 | 423 | 423 |