Table 2. GBS sequencing read and marker statistics for genotyped Cucurbita.
| C. pepo | C. moschata | C. okee. | F2 | ||
|---|---|---|---|---|---|
| Individuals | 81 | 3(4)** | 2(6)** | 177 | |
| Filtered Barcoded Sequencing Reads | 115,452,288 | 5,918,285 | 6,769,505 | 226,188,080 | |
| Reads Aligned to Physical Scaffolds | 106,503,712 | 5,433,639 | 5,583,919 | 197,758,572 | |
| All GBS Markers | 254,760 | 190,579 | 194,730 | 252,090 | |
| Avg. Read Depth | 5.62 | 7.87 | 5.59 | 4.91 | |
| Proportion Missing Data | 0.42 | 0.27 | 0.33 | 0.45 | |
| GBS Markers with avg. min. read depth ≥ 5 | 61,090 | 63,058 | 53,796 | 57,151 | |
| Avg. Read Depth | 19.63 | 20.66 | 16.43 | 17.39 | |
| Proportion Missing Data | 0.04 | 0.02 | 0.03 | 0.07 |
C. pepo includes the cultivar panel. C. moschata includes ‘PMT Large Butternut’, ‘Bugle’, and ‘Burpee’s Butterbush’. “C. okee.” includes two C. okeechobeensis subsp. martinezii accessions: PI 406680, the original source of Pm-0, and PI 532363, one of the parents of the F2 population. The F2 population is derived from C. okeechobeensis subsp. martinezii PI 532363 and C. moschata ‘Burpee’s Butterbush’
** The number outside of the parentheses is the number of distinct genotypes. The number inside of the parenthesis includes the total number of individuals sequenced in the case where some genotypes were sequenced in multiple technical replicates. Values in the table represent all technical replicates.