Table 2.
Success rate of SNPs
| Species | N | SNPs start | SNPs design | SNPs verified | SNPs barcode | SNPs STRUCTURE |
|---|---|---|---|---|---|---|
| Q. alba | 4 | 95 | 30 | 20 | 5 | 3 |
| Q. austrina | 2 | 25 | 8 | 8 | 5 | 4 |
| Q. bicolor | 2 | 22 | 10 | 7 | 5 | 4 |
| Q. boyntonii | 2 | 2 | 1 | 0 | 0 | 0 |
| Q. chapmanii | 2 | 10 | 4 | 4 | 1 | 1 |
| Q. lyrata | 4 | 35 | 8 | 7 | 4 | 3 |
| Q. macrocarpa | 9 | 64 | 15 | 7 | 4 | 3 |
| Q. michauxii | 5 | 57 | 23 | 19 | 8 | 5 |
| Q. montana | 4 | 84 | 33 | 25 | 8 | 7 |
| Q. muehlenbergii/Q. prinoides | 6 | 143 | 45 | 25 | 8 | 7 |
| Q. oglethorpensis | 3 | 22 | 7 | 6 | 4 | 4 |
| Q. sinuata | 2 | 31 | 16 | 13 | 8 | 7 |
| Q. stellata | 3 | 52 | 26 | 21 | 13 | 12 |
| Clade 1 | 14 | 7 | 6 | 7 | 2 | 1 |
| Clade 2 | 4 | 3 | 0 | 0 | 0 | 0 |
| East Asian white oaks | 4 | 98 | 29 | 10 | 4 | 4 |
| European white oaks | 11 | 94 | 30 | 8 | 1 | 1 |
| Total | 844 | 291 | 187 | 80 | 66 | |
| Mean (± SD) | 49.6 (±41.1) | 17.1 (±13.2) | 11 (±8.1) | 4.7 (±3.5) | 3.9 (±3.1) |
Initial number of SNPs (RADami and Stacks), number of SNPs after passing primer design software with percentage in parentheses, and number of SNPs verified by MassARRAY. Clade 1 = Q. sinuata, Q. oglethorpensis, Q. boyntonii, Q. stellata, Q. chapmanii, Q. austirna. Clade 2 = Q. austrina and Q. chapmanii. SNPs start = number of SNPs initially selected for consideration. SNPs design = SNPs that passed assay design step. SNPs verified = SNPs that successfully amplified on SEQUENOM. SNPs barcode = SNPs included in the two‐multiplex barcoding set presented here. SNPs STRUCTURE = SNPs included in STRUCTURE analyses presented in this article (removing SNPs with substantial amounts of missing data).