Table 3.
QTL genotypes for bloom date (BD), ripening date (RD), and fruit development period (FDP) traits for seven breeding parents, with associated linkage groups, haplotype names, the haplotype’s SNP sequences, and original sources
| Trait/LG/Pos | Parents | QTL allele | Hap. | SNP haplotype | Successive ancestors |
|---|---|---|---|---|---|
| Allele sequence | (founders in bold) | ||||
| BD LG1 [172.23–182.34] | Galaxy | Q ♀ | H4 | ABABBBBBAAB | Galaxy |
| Galaxy | Q ♂ | H4 | ABABBBBBAAB | Galaxy | |
| Y426–371 | Q1 ♀ | H1 | ABABBBAAAAB | Y426–371 | |
| Y426–371 | Q1 ♂ | H7 | BABBBBAAABB | Y426–371 | |
| Y434–40 | Q4 ♂ | H2 | ABABBBAAABB | Y434–40 | |
| Victor | Q ♂ | H5 | ABBBBBABBBA | Goldprince > F_Goldprince | |
| Y435–246 | Q3 ♀ | H6 | BAABBBBBAAB | Y435–246 | |
| Y435–246 | Q2 ♂ | H3 | ABABBBABBBA | Y435–246 | |
| Y434–40 | q ♀ | H8 | BBABBBBBAAA | Y434–40 | |
| Victor | q ♀ | H8 | BBABBBBBAAA | TropicBeauty > Fla3–2 | |
| TX2B136 | q ♀ | H8 | BBABBBBBAAA | TX2B136 | |
| TX2B136 | q ♂ | H8 | BBABBBBBAAA | TX2B136 | |
| TXW1490_1 | q ♀ | H8 | BBABBBBBAAA | TropicBeauty > Fla3–2 | |
| TXW1490_1 | q ♂ | H8 | BBABBBBBAAA | F_TXW1490_1 | |
| BD LG4 [47.83–54.54] | TX2B136 | Q ♀ | H3 | ABAAAABBAABAB | TX2B136 |
| TX2B136 | Q ♂ | H3 | ABAAAABBAABAB | TX2B136 | |
| TXW1490_1 | Q ♀ | H3 | ABAAAABBAABAB | TropicBeauty > Flordaprince | |
| TXW1490_1 | Q ♂ | H3 | ABAAAABBAABAB | F_TXW1490_1 | |
| Y426–371 | Q ♀ | H3 | ABAAAABBAABAB | Y426–371 | |
| Victor | Q ♂ | H3 | ABAAAABBAABAB | Goldprince > F_Goldprince | |
| Y435–246 | Q ♂ | H2 | BABBBBAABBABA | Y435–246 | |
| Galaxy | Q ♂ | H2 | BABBBBAABBABA | Galaxy | |
| Y435–246 | q ♀ | H1 | BBBBBBBABAAAA | Y435–246 | |
| Y426–371 | q ♂ | H1 | BBBBBBBABAAAA | Y426–371 | |
| Galaxy | q ♀ | H1 | BBBBBBBABAAAA | Galaxy | |
| Y434–40 | q ♂ | H1 | BBBBBBBABAAAA | Y434–40 | |
| Y434–40 | q ♀ | H4 | ABBBBBBABAAAA | Y434–40 | |
| Victor | q ♀ | H5 | ABBABABABBBAB | TropicBeauty > Fla3–2 | |
| BD LG7 [62.05–68.91] | Y435–246 | Q ♂ | H3 | ABAAABAABBABB | Y435–246 |
| Galaxy | Q ♀ | H6 | BBABABBABABBA | Galaxy | |
| Victor | Q ♂ | H6 | BBABABBABABBA | Goldprince > F_Goldprince | |
| TX2B136 | Q ♀ | H1 | BBABBAAAABAAB | TX2B136 | |
| Y426–371 | Q ♂ | H2 | BBABBAAAABABA | Y426–371 | |
| Y435–246 | Q ♀ | H2 | BBABBAAAABABA | Y435–246 | |
| Y434–40 | Q ♀ | H2 | BBABBAAAABABA | Y434–40 | |
| Galaxy | q ♂ | H4 | AABABBBBBABAB | Galaxy | |
| Y426–371 | q ♀ | H4 | AABABBBBBABAB | Y426–371 | |
| Y434–40 | q ♂ | H5 | AABAAAAAABABA | Y434–40 | |
| Victor | q ♀ | H7 | AABBBAAAABABA | TropicBeauty > Flordaprince | |
| TX2B136 | q ♂ | H7 | AABBBAAAABABA | TX2B136 | |
| TXW1490_1 | q ♀ | H7 | AABBBAAAABABA | TropicBeauty > Flordaprince | |
| TXW1490_1 | q ♂ | H7 | AABBBAAAABABA | F_TXW1490_1 | |
| RD and FDP LG4 [42.33–45.19] | Y426–371 | Q1 ♂ | H3 | BAAAAAAAABAAAAB | Y426–371 |
| Y434–40 | Q1 ♂ | H3 | BAAAAAAAABAAAAB | Y434–40 | |
| Galaxy | Q1 ♀ | H3 | BAAAAAAAABAAAAB | Galaxy | |
| Victor | Q2 ♀ | H4 | AAABABAABAABBBB | TropicBeauty > Fla3–2 | |
| TXW1490_1 | Q2 ♀ | H4 | AAABABAABAABBBB | TropicBeauty > Fla3–2 | |
| Y435–246 | q1 ♀ | H1 | ABBBBBBBBABBBBA | Y435–246 | |
| Y435–246 | q1 ♂ | H1 | ABBBBBBBBABBBBA | Y435–246 | |
| Y434–40 | q1 ♀ | H1 | ABBBBBBBBABBBBA | Y434–40 | |
| Galaxy | q1 ♂ | H1 | ABBBBBBBBABBBBA | Galaxy | |
| Victor | q1 ♂ | H1 | ABBBBBBBBABBBBA | Goldprince > F_Goldprince | |
| TX2B136 | q1 ♀ | H1 | ABBBBBBBBABBBBA | TX2B136 | |
| TX2B136 | q1 ♂ | H1 | ABBBBBBBBABBBBA | TX2B136 | |
| TXW1490_1 | q1 ♂ | H1 | ABBBBBBBBABBBBA | F_TXW1490_1 | |
| Y426–371 | q2 ♀ | H2 | BBBBBBBBBABBBBA | Y426–371 |
QTL alleles for each parent cultivar are presented with ♀ and ♂ for maternal and paternal parent sources, respectively. Parents that are heterozygous for the QTL are in bold. Allele(s) for predictive SNP marker(s) associated with Q or q-alleles for increasing or decreasing a given trait, respectively, are shown inunderscored bold. Q/q of different effect magnitude are indicated by subscript numbers. The identity of the SNP markers and their physical and genetic location is given in Additional file 1: Table S7