Supplementary Table S1. Locus Name, Amplification Method, Allele Sizes in the Parents

Supplementary Table S1. Locus name, amplification method, allele sizes in the parents, segregation type and ratios (expected and observed), results for χ2goodness-of-fit test and linkage group of theMalus progeny from the cross ‘Fiesta’ × ‘Totem’ for all SSRs tested.

Loci / Amp.a / Fiesta alleles / Totem alleles / Segreg. type / Expected classes & ratios / Observed ratios / χ2 / df / Signf.b / Map positionc
AJ000761 / F / 236/236 / 219/236 / nnxnp / 1nn:1np / 51:33 / 3.9 / 1 / * / 14 (FD14)
BGA35 / NA / - / - / - / - / - / - / - / -
BGT23b / NI / 180 / 180 / - / - / - / - / - / (BH2)
BPPCT28 / F / 164/164 / 152/156 / nnxnp / 1nn:1np / 50:35 / 2.6 / 1 / - / 15 (TE1)
CH_Vf1 / F / 140/140 / 160/174 / nnxnp / 1nn:1np / 34:49 / 2.7 / 1 / - / 1 (FD1)
CH01a07b.x / F / n/n / 268/n / nnxnp / 1nn:1np / 42:42 / 0.0 / 1 / - / 16
CH01a07b.y / F / n/n / 224/292 / nnxnp / 1nn:1np / 43:42 / 0.0 / 1 / - / 3
CH01a07b.z / F / n/n / 200/n / nnxnp / 1nn:1np / 36:49 / 2.0 / 1 / - / 15
CH01a09 / F / 193/199 / 199/n / lmxll / 1ll:1lm / 35:48 / 2.0 / 1 / - / 14
CH01b07 / F / 94/116 / 86/104 / abxcd / 1ac:1ad:1bc:1bd / 18:26:18:22 / 2.1 / 3 / - / 5
CH01b09b / NI / 172 / 172 / - / - / - / - / - / -
CH01b11 / F / 197/199 / 201/207 / abxcd / 1ac:1ad:1bc:1bd / 18:26:17:24 / 2.8 / 3 / - / 6
CH01b12.x / ND / - / - / - / - / - / - / - / (FD4)
CH01b12.y / F / 155/174 / n/n / lmxll / 1ll:1lm / 40:45 / 0.3 / 1 / - / 13 (FD13)
CH01b12.z / NI / 120 / 120 / - / - / - / - / - / (FD12)
CH01c06 / F / 159/169 / 153/159 / efxeg / 1ee:1ef:1eg:1fg / 16:8:33:24 / 17.0 / 3 / *** / 8 (FD8)
CH01c08 / NI / 125 / n/n / - / - / - / - / - / -
CH01c09 / F / 91/91 / 101/n / nnxnp / 1nn:1np / 43:42 / 0.0 / 1 / - / 13
CH01c11 / F / 109/111 / 117/144 / abxcd / 1ac:1ad:1bc:1bd / 20:31:15:19 / 6.6 / 3 / - / 11
CH01d01 / F / 200/214 / 214/n / lmxll / 1ll:1lm / 48:37 / 1.4 / 1 / - / 15
CH01d03.y / F / 132/135 / 129/139 / abxcd / 1ac:1ad:1bc:1bd / 19:32:11:22 / 10.8 / 3 / * / 4 (FD4)
CH01d03.z / ND / - / - / - / - / - / - / - / (FD12)
CH01d07 / F / 103/103 / 101/103 / nnxnp / 1nn:1np / 55:30 / 7.3 / 1 / ** / 4
CH01d08 / F / 254/270 / 236/278 / abxcd / 1ac:1ad:1bc:1bd / 28:11:36:10 / 23.3 / 3 / *** / 15 (FD15)
CH01d09 / F / 145/152 / 160/n / abxcd / 1ac:1ad:1bc:1bd / 30:19:26:10 / 10.9 / 3 / * / Exc (FD12)
CH01e01 / F / 103/107 / 107/133 / efxeg / 1ee:1ef:1eg:1fg / 16:25:16:27 / 4.9 / 3 / - / 14 (FD14)
CH01e09b / F / 113/115 / 113/n / lmxll / 1ll:1lm / 39:42 / 0.1 / 1 / - / 10
CH01e12.y / F / n/n / 236/n / nnxnp / 1nn:1np / 51:34 / 3.4 / 1 / - / 15
CH01e12.z / F / 243/n / 240/n / efxeg / 1ee:1ef:1eg:1fg / 11:29:24:21 / 8.1 / 3 / * / 8 (FD8)
CH01f02 / F / 181/204 / 173/179 / abxcd / 1ac:1ad:1bc:1bd / 20:31:15:19 / 6.6 / 3 / - / 12 (FD12)
CH01f03a / F / 208/219 / 219/222 / efxeg / 1ee:1ef:1eg:1fg / 21:22:13:28 / 5.4 / 3 / - / 16
CH01f03b / F / 157/169 / 155/177 / abxcd / 1ac:1ad:1bc:1bd / 21:17:28:19 / 3.2 / 3 / - / 9 (FD9)
CH01f07a / F / 170/190 / 188/192 / abxcd / 1ac:1ad:1bc:1bd / 12:26:19:28 / 7.5 / 3 / - / 10 (FD10)
CH01f09 / F / 123/139 / 111/137 / abxcd / 1ac:1ad:1bc:1bd / 23:23:14:24 / 3.1 / 3 / - / 8 (FD8)
CH01f12 / F / 152/154 / 154/160 / efxeg / 1ee:1ef:1eg:1fg / 22:24:19:17 / 1.4 / 3 / - / Exc (FD10)
CH01g05 / F / 141/169 / 141/163 / efxeg / 1ee:1ef:1eg:1fg / 19:25:16:25 / 2.9 / 3 / - / 14 (FD14)
CH01g12 / F / 108/154 / 108/130 / efxeg / 1ee:1ef:1eg:1fg / 29:23:20:13 / 6.3 / 3 / - / 12 (FD12)
CH01h01 / F / 116/128 / 106/116 / efxeg / 1ee:1ef:1eg:1fg / 29:23:16:16 / 5.6 / 3 / - / 17 (FD17)
CH01h02.y / F / 201/202 / 201/202 / hkxhk / 1hh:2hk:1kk / 23:34:28 / 4.0 / 2 / - / 17
CH01h02.z / F / 233/241 / 233/233 / lmxll / 1ll:1lm / 44:41 / 0.1 / 1 / - / 9 (FD9)
CH01h10 / F / 95/95 / 106/108 / nnxnp / 1nn:1np / 46:39 / 0.6 / 1 / - / 8 (FD8)
CH01h11 / F / 169/183 / n/n / lmxll / 1ll:1lm / 44:41 / 0.1 / 1 / - / 13
CH02a03 / F / 149/153 / 130/145 / abxcd / 1ac:1ad:1bc:1bd / 28:25:20:11 / 7.9 / 3 / * / 16 (FD16)
CH02a04.y / F / 91/97 / 101/103 / abxcd / 1ac:1ad:1bc:1bd / 16:23:26:20 / 2.6 / 3 / - / 2 (FD2)
CH02a04.z / F / 86/n / 86/n / hkxhk / 3h-:1kk / 50:35 / 5.0 / 1 / * / 7 (FD7)
CH02a08.y / F / 142/174 / 152/174 / efxeg / 1ee:1ef:1eg:1fg / 18:18:26:23 / 2.2 / 3 / - / 10 (FD10)
CH02a08.z / ND / - / - / - / - / - / - / - / (FD5)
CH02a10 / F / 139/174 / 145/n / abxcd / 1ac:1ad:1bc:1bd / 24:19:25:16 / 2.6 / 3 / - / 10 (FD10)
CH02b03b / R / 77/97 / 95/99 / abxcd / 1ac:1ad:1bc:1bd / 13:26:18:28 / 6.9 / 3 / - / 10 (FD10)
CH02b07 / F / 104/117 / 102/104 / efxeg / 1ee:1ef:1eg:1fg / 16:19:29:21 / 4.4 / 3 / - / 10 (FD10)
CH02b10 / F / 118/124 / 128/130 / abxcd / 1ac:1ad:1bc:1bd / 16:23:25:21 / 2.1 / 3 / - / 2 (FD2)
CH02b11 / F / 98/125 / 98/n / lmxll / 1ll:1lm / 41:44 / 0.1 / 1 / - / 7
CH02b12 / R / 126/128 / 130/142 / abxcd / 1ac:1ad:1bc:1bd / 8:25:26:26 / 11.1 / 3 / * / 5 (FD5)

Supplementary Table S1 (continued)

Loci / Amp.a / Fiesta alleles / Totem alleles / Segreg. type / Expected classes & ratios / Observed ratios / χ2 / df / Signif.b / Map positionc
CH02c02a / F / 156/168 / 164/169 / abxcd / 1ac:1ad:1bc:1bd / 35:8:29:13 / 23.2 / 3 / *** / 2 (FD2)
CH02c02b / F / 108/112 / 108/112 / hkxhk / 1hh:2hk:1kk / 23:44:18 / 0.7 / 2 / - / UL (FD4)
CH02c06 / F / 232/236 / 226/n / abxcd / 1ac:1ad:1bc:1bd / 16:20:28:21 / 3.5 / 3 / - / 2 (FD2)
CH02c09 / F / 230/246 / 224/254 / abxcd / 1ac:1ad:1bc:1bd / 19:21:16:28 / 3.7 / 3 / - / 15 (FD15)
CH02c11 / F / 215/227 / 227/233 / efxeg / 1ee:1ef:1eg:1fg / 26:22:18:19 / 1.8 / 3 / - / 10 (FD10)
CH02d08 / F / 224/254 / 214/228 / abxcd / 1ac:1ad:1bc:1bd / 29:21:16:19 / 4.4 / 3 / - / 11 (FD11)
CH02d10a / F / 218/227 / 206/218 / efxeg / 1ee:1ef:1eg:1fg / 21:14:25:24 / 3.5 / 3 / - / 16 (FD16)
CH02d10b / F / 149/153 / 149/153 / hkxhk / 1hh:2hk:1kk / 32:35:18 / 7.3 / 2 / * / 15
CH02d11 / F / 116/128 / 118/122 / abxcd / 1ac:1ad:1bc:1bd / 14:26:11:34 / 16.1 / 3 / ** / 15 (FD15)
CH02d12.y / F / 225/225 / 227/231 / nnxnp / 1nn:1np / 43:42 / 0.0 / 1 / - / 11
CH02d12.z / F / 180/197 / 190/203 / abxcd / 1ac:1ad:1bc:1bd / 17:19:26:23 / 2.3 / 3 / - / 11 (FD11)
CH02e02 / F / 121/121 / 121/139 / nnxnp / 1nn:1np / 44:41 / 0.1 / 1 / - / 13
CH02e12 / F / 199/199 / 193/199 / nnxnp / 1nn:1np / 39:46 / 0.6 / 1 / - / 15
CH02f06 / F / 149/157 / 146/155 / abxcd / 1ac:1ad:1bc:1bd / 10:34:7:34 / 30.8 / 3 / *** / 2 (FD2)
CH02g01 / F / 224/224 / 198/214 / nnxnp / 1nn:1np / 44:41 / 0.1 / 1 / - / 13
CH02g04 / F / 193/199 / 189/n / abxcd / 1ac:1ad:1bc:1bd / 24:16:29:16 / 5.8 / 3 / - / 17 (FD17)
CH02g09 / F / 93/107 / 100/134 / abxcd / 1ac:1ad:1bc:1bd / 24:14:24:22 / 3.2 / 3 / - / 8 (FD8)
CH02h07 / F / 211/n / 203/215 / abxcd / 1ac:1ad:1bc:1bd / 23:18:28:16 / 4.1 / 3 / - / 5
CH02h11a / F / 100/125 / 127/133 / abxcd / 1ac:1ad:1bc:1bd / 18:32:12:23 / 10.1 / 3 / * / 4 (FD4)
CH02h11b / F / 218/218 / 212/214 / nnxnp / 1nn:1np / 51:34 / 3.4 / 1 / - / 12
CH03a02 / F / 120/180 / 120/136 / efxeg / 1ee:1ef:1eg:1fg / 25:23:17:20 / 1.7 / 3 / - / 14 (FD14)
CH03a03 / F / 166/166 / 151/166 / nnxnp / 1nn:1np / 47:37 / 1.2 / 1 / - / 14
CH03a04 / F / 99/107 / 99/n / lmxll / 1ll:1lm / 44:40 / 0.2 / 1 / - / 5 (FD5)
CH03a08 / NA / - / - / - / - / - / - / - / (FD13)
CH03a09 / F / 120/127 / 130/139 / abxcd / 1ac:1ad:1bc:1bd / 25:22:23:15 / 2.7 / 3 / - / 5 (FD5)
CH03b01.y / NI / 179 / 183 / - / - / - / - / - / -
CH03b01.z / F / 164/168 / 162/164 / efxeg / 1ee:1ef:1eg:1fg / 35:26:10:14 / 18.4 / 3 / *** / 2
CH03b06 / F / 112/112 / 106/122 / nnxnp / 1nn:1np / 53:31 / 5.8 / 1 / * / 15 (FD15)
CH03b10 / F / 100/116 / 94/100 / efxeg / 1ee:1ef:1eg:1fg / 17:10:21:37 / 18.5 / 3 / *** / 15 (FD15)
CH03c01 / F / 167/169 / 171/188 / abxcd / 1ac:1ad:1bc:1bd / 27:12:26:20 / 6.7 / 3 / - / 6 (FD6)
CH03c02 / F / 123/123 / 121/123 / nnxnp / 1nn:1np / 49:36 / 2.0 / 1 / - / 12 (FD12)
CH03d01 / F / 96/108 / 106 / efxeg / 1ee:1ef:1eg:1fg / 23:13:46:3 / 47.9 / 3 / *** / 2 (FD2)
CH03d02 / F / 213/218 / 190/198 / abxcd / 1ac:1ad:1bc:1bd / 19:16:21:28 / 3.7 / 3 / - / 11 (FD11)
CH03d07 / F / 203/215 / 187/n / abxcd / 1ac:1ad:1bc:1bd / 16:22:19:28 / 3.7 / 3 / - / 6 (FD6)
CH03d08 / F / 128/156 / 128/150 / efxeg / 1ee:1ef:1eg:1fg / 19:25:16:25 / 2.9 / 3 / - / 14 (FD14)
CH03d10 / F / 161/177 / 161/n / lmxll / 1ll:1lm / 47:38 / 0.9 / 1 / - / 2 (FD2)
CH03d11 / F / 116/120 / 120/122 / efxeg / 1ee:1ef:1eg:1fg / 13:23:23:24 / 3.9 / 3 / - / 10 (FD10)
CH03d12 / F / 103/132 / 118/n / abxcd / 1ac:1ad:1bc:1bd / 17:23:14:31 / 7.9 / 3 / * / 6 (FD6)
CH03e03 / F / 201/209 / 181/188 / abxcd / 1ac:1ad:1bc:1bd / 25:11:25:23 / 6.5 / 3 / - / 3 (FD3)
CH03g04 / F / 135/139 / 139/n / lmxll / 1ll:1lm / 38:47 / 0.9 / 1 / - / 14 (FD14)
CH03g06 / F / 134/166 / 166/168 / efxeg / 1ee:1ef:1eg:1fg / 24:22:20:17 / 1.3 / 3 / - / 14
CH03g07 / F / 115/119 / 117/163 / abxcd / 1ac:1ad:1bc:1bd / 15:17:27:26 / 5.3 / 3 / - / 3 (FD3)
CH03g12.y / F / 178/196 / 192/196 / efxeg / 1ee:1ef:1eg:1fg / 17:26:21:21 / 1.9 / 3 / - / 3 (FD3)
CH03g12.z / F / 150/158 / 150/166 / efxeg / 1ee:1ef:1eg:1fg / 14:24:23:24 / 3.3 / 3 / - / 1 (FD1)
CH03h03 / F / 109/117 / 109/n / lmxll / 1ll:1lm / 42:43 / 0.0 / 1 / - / 13 (FD13)
CH03h06 / F / 144/164 / 160/172 / abxcd / 1ac:1ad:1bc:1bd / 15:26:9:35 / 18.9 / 3 / *** / 15
CH04a06 / F / 105/107 / 105/122 / efxeg / 1ee:1ef:1eg:1fg / 38:26:9:12 / 25.4 / 3 / *** / 15
CH04a12 / F / 162/182 / 180/n / abxcd / 1ac:1ad:1bc:1bd / 25:24:19:17 / 2.1 / 3 / - / 11 (FD11)
CH04b10 / F / 200/200 / 150/166 / nnxnp / 1nn:1np / 33:52 / 4.3 / 1 / * / 17
CH04c03 / F / 192/192 / 192/194 / nnxnp / 1nn:1np / 39:46 / 0.6 / 1 / - / -
CH04c06 / F / 181/188 / 175/188 / efxeg / 1ee:1ef:1eg:1fg / 27:22:16:20 / 3.0 / 3 / - / 17 (FD17)
CH04c07 / F / 107/113 / 109/113 / efxeg / 1ee:1ef:1eg:1fg / 20:23:17:23 / 1.2 / 3 / - / 14 (FD14)
CH04c10 / F / 162/166 / 131/164 / abxcd / 1ac:1ad:1bc:1bd / 21:21:26:16 / 2.4 / 3 / - / 17
CH04d02 / F / 117/119 / 119/119 / lmxll / 1ll:1lm / 34:51 / 3.4 / 1 / - / 12 (FD12)
CH04d07 / F / 123/140 / 138/n / abxcd / 1ac:1ad:1bc:1bd / 19:19:23:24 / 1.0 / 3 / - / 11 (FD11)
CH04d08 / F / 110/132 / 116/130 / abxcd / 1ac:1ad:1bc:1bd / 19:19:20:27 / 2.1 / 3 / - / 11
CH04d10 / F / 146/159 / 146/161 / efxeg / 1ee:1ef:1eg:1fg / 26:20:20:19 / 1.4 / 3 / - / 11 (FD11)

Supplementary Table S1 (continued)

Loci / Amp.a / Fiesta alleles / Totem alleles / Segreg. type / Expected classes & ratios / Observed ratios / χ2 / df / Signif.b / Map positionc
CH04d11.y / F / n/n / 135/n / nnxnp / 1nn:1np / 56:28 / 9.3 / 1 / ** / 17
CH04d11.z / F / 140/n / 128/n / efxeg / 1ee:1ef:1eg:1fg / 27:23:20:15 / 3.6 / 3 / - / 3
CH04e02 / F / 149/157 / 141/n / abxcd / 1ac:1ad:1bc:1bd / 25:17:22:21 / 1.5 / 3 / - / 4 (FD4)
CH04e03 / F / 186/196 / 186/187 / efxeg / 1ee:1ef:1eg:1fg / 19:31:20:15 / 6.6 / 3 / - / 5 (FD5)
CH04e05 / F / 200/228 / 202/202 / lmxll / 1ll:1lm / 44:41 / 0.1 / 1 / - / 7 (FD7)
CH04e12b / F / 224/224 / 223/224 / nnxnp / 1nn:1np / 69:16 / 33.0 / 1 / *** / 2
CH04f03 / F / 174/190 / 178/184 / abxcd / 1ac:1ad:1bc:1bd / 18:24:17:25 / 2.4 / 3 / - / 10
CH04f04 / F / 142/146 / 144/146 / efxeg / 1ee:1ef:1eg:1fg / 29:19:20:15 / 5.0 / 3 / - / 5
CH04f06 / F / 173/177 / 173/175 / efxeg / 1ee:1ef:1eg:1fg / 19:25:16:25 / 2.9 / 3 / - / 14 (FD14)
CH04f07 / F / 78/84 / 78/n / lmxll / 1ll:1lm / 18:67 / 28.3 / 1 / *** / 9
CH04f08 / F / 189/199 / 193/221 / abxcd / 1ac:1ad:1bc:1bd / 22:21:13:29 / 6.1 / 3 / - / 17
CH04f10 / F / 229/241 / 223/n / abxcd / 1ac:1ad:1bc:1bd / 21:15:21:27 / 3.4 / 3 / - / 16 (FD16)
CH04g04 / F / 171/181 / 181/187 / efxeg / 1ee:1ef:1eg:1fg / 21:15:27:22 / 3.4 / 3 / - / 12 (FD12)
CH04g07 / F / 146/171 / 146/171 / hkxhk / 1hh:2hk:1kk / 20:44:21 / 0.1 / 2 / - / 11 (FD11)
CH04g09.x / F / n/n / 168/n / nnxnp / 1nn:1np / 25:58 / 13.1 / 1 / *** / 15
CH04g09.y / F / n/n / 146/n / nnxnp / 1nn:1np / 40:43 / 0.1 / 1 / - / 10 (FD10)
CH04g09.z / F / 144/n / 166/n / efxeg / 1ee:1ef:1eg:1fg / 46:5:2:30 / 63.8 / 3 / *** / Exc (FD5)
CH04g10 / F / 134/134 / 168/n / nnxnp / 1nn:1np / 59:25 / 13.8 / 1 / *** / 15 (FD15)
CH04g12 / NI / 152 / 163 / - / - / - / - / - / -
CH04h02.y / F / 226/242 / 195/272 / abxcd / 1ac:1ad:1bc:1bd / 18:16:31:20 / 6.3 / 3 / - / 11 (FD11)
CH04h02.z / F / 167/177 / 171/175 / abxcd / 1ac:1ad:1bc:1bd / 18:16:31:20 / 6.3 / 3 / - / 11 (FD11)
CH05a02.y / F / 107/131 / 109/131 / efxeg / 1ee:1ef:1eg:1fg / 20:13:25:26 / 5.0 / 3 / - / 8 (FD8)
CH05a02.z / F / 121/n / n/n / lmxll / 1ll:1lm / 35:50 / 2.6 / 1 / - / 15 (FD15)
CH05a03 / F / 187/189 / 178/220 / abxcd / 1ac:1ad:1bc:1bd / 20:24:19:22 / 0.7 / 3 / - / 9
CH05a04 / F / 164/189 / 163/189 / efxeg / 1ee:1ef:1eg:1fg / 16:24:22:23 / 1.8 / 3 / - / 16 (FD16)
CH05a05 / F / 218/232 / 211/n / abxcd / 1ac:1ad:1bc:1bd / 17:26:14:27 / 6.0 / 3 / - / 6 (FD6)
CH05a09 / F / 173/185 / 175/n / abxcd / 1ac:1ad:1bc:1bd / 12:20:28:23 / 6.5 / 3 / - / 5 (FD5)
CH05b06.x / F / 215/215 / 215/217 / nnxnp / 1nn:1np / 31:54 / 6.2 / 1 / * / 10 (DT10)
CH05b06.y / F / 158/168 / 152/168 / efxeg / 1ee:1ef:1eg:1fg / 17:15:32:20 / 8.3 / 3 / * / 16 (FD16)
CH05b06.z / ND / - / - / - / - / - / - / - / (FD5)
CH05c02 / F / 168/168 / 168/194 / nnxnp / 1nn:1np / 42:43 / 0.0 / 1 / - / 11
CH05c04 / F / 202/256 / 206/n / abxcd / 1ac:1ad:1bc:1bd / 23:20:21:20 / 0.3 / 3 / - / 13 (FD13)
CH05c06 / F / 99/114 / 90/116 / abxcd / 1ac:1ad:1bc:1bd / 21:12:21:30 / 7.7 / 3 / - / 16 (FD16)
CH05c07 / F / 123/139 / 121/145 / abxcd / 1ac:1ad:1bc:1bd / 19:20:19:27 / 2.1 / 3 / - / 9 (FD9)
CH05d02 / F / 213/216 / 202/n / abxcd / 1ac:1ad:1bc:1bd / 23:12:32:18 / 10.1 / 3 / * / 4 (FD4)
CH05d03 / F / 159/167 / 159/170 / efxeg / 1ee:1ef:1eg:1fg / 27:20:18:20 / 2.2 / 3 / - / 14 (FD14)
CH05d04 / F / 176/217 / 174/176 / efxeg / 1ee:1ef:1eg:1fg / 24:19:23:19 / 1.0 / 3 / - / 12 (FD12)
CH05d08.y / F / 120/122 / 118/120 / efxeg / 1ee:1ef:1eg:1fg / 17:16:23:29 / 5.1 / 3 / - / 17 (FD17)
CH05d08.z / ND / - / - / - / - / - / - / - / (FD9)
CH05d11 / F / 171/196 / 169/173 / abxcd / 1ac:1ad:1bc:1bd / 19:30:16:20 / 5.2 / 3 / - / 12 (FD12)
CH05e03 / F / 162/182 / 160/170 / abxcd / 1ac:1ad:1bc:1bd / 21:25:25:14 / 3.8 / 3 / - / 2 (FD2)
CH05e04 / F / 150/165 / 154/164 / abxcd / 1ac:1ad:1bc:1bd / 23:28:21:10 / 8.4 / 3 / * / 16 (FD16)
CH05e05 / F / 144/149 / 142/144 / efxeg / 1ee:1ef:1eg:1fg / 22:22:14:26 / 3.6 / 3 / - / 14 (FD14)
CH05e06 / F / 147/153 / 133/147 / efxeg / 1ee:1ef:1eg:1fg / 24:24:16:21 / 2.0 / 3 / - / 5 (FD5)
CH05f04 / F / 161/165 / 130/157 / abxcd / 1ac:1ad:1bc:1bd / 20:20:22:23 / 0.3 / 3 / - / 13 (FD13)
CH05f06 / F / 165/175 / 165/185 / efxeg / 1ee:1ef:1eg:1fg / 25:25:20:15 / 3.2 / 3 / - / 5 (FD5)
CH05g01 / F / 246/274 / 246/278 / efxeg / 1ee:1ef:1eg:1fg / 17:27:18:23 / 3.0 / 3 / - / 11
CH05g02 / F / 144/144 / 134/147 / nnxnp / 1nn:1np / 53:32 / 5.2 / 1 / * / 12
CH05g03 / F / 162/182 / 160/164 / abxcd / 1ac:1ad:1bc:1bd / 22:18:28:17 / 3.5 / 3 / - / 17 (FD17)
CH05g05 / F / 143/143 / 102/140 / nnxnp / 1nn:1np / 50:34 / 3.0 / 1 / - / 15
CH05g07.y / F / 148/152 / 146/168 / abxcd / 1ac:1ad:1bc:1bd / 29:19:21:16 / 4.4 / 3 / - / 12 (FD12)
CH05g07.z / F / 172/200 / 161/200 / efxeg / 1ee:1ef:1eg:1fg / 18:22:16:25 / 2.4 / 3 / - / 14 (FD14)
CH05g08 / F / 179/182 / 164/183 / abxcd / 1ac:1ad:1bc:1bd / 19:24:19:23 / 1.0 / 3 / - / 1 (FD1)
CH05g11 / F / 204/246 / 244/246 / efxeg / 1ee:1ef:1eg:1fg / 22:21:17:25 / 1.5 / 3 / - / 14 (FD14)
CH05h05 / F / 172/172 / 156/183 / nnxnp / 1nn:1np / 44:41 / 0.1 / 1 / - / 13 (FD13)
CH05h12 / F / 165/165 / 153/165 / nnxnp / 1nn:1np / 31:54 / 6.2 / 1 / * / 10

Supplementary Table S1 (continued)

Loci / Amp.a / Fiesta alleles / Totem alleles / Segreg. type / Expected classes & ratios / Observed ratios / χ2 / df / Signif.b / Map positionc
CN444542 / F / 127/137 / 121/n / abxcd / 1ac:1ad:1bc:1bd / 21:17:19:27 / 2.7 / 3 / - / 9 (FD9)
CN444794 / F / 258/304 / 258/267 / efxeg / 1ee:1ef:1eg:1fg / 24:22:17:21 / 1.2 / 3 / - / 7 (FD7)
CN493139.w / F / n/n / 154/n / nnxnp / 1nn:1np / 37:44 / 0.6 / 1 / - / Exc
CN493139.x / F / n/n / 141/n / nnxnp / 1nn:1np / 46:39 / 0.6 / 1 / - / Exc
CN493139.y / F / 120/n / 121/n / efxeg / 1ee:1ef:1eg:1fg / 21:26:19:19 / 1.5 / 3 / - / 5
CN493139.z / F / n/n / 137/172 / nnxnp / 1nn:1np / 29:56 / 8.6 / 1 / ** / 2 (FD2)
COL.y / R / 184/202 / 194/208 / abxcd / 1ac:1ad:1bc:1bd / 11:16:22:16 / 3.7 / 3 / - / 11
COL.z / F / 231/233 / 231/241 / efxeg / 1ee:1ef:1eg:1fg / 25:30:14:16 / 8.0 / 3 / * / 10 (FD10)
EMPc1 / NA / - / - / - / - / - / - / - / -
EMPc10 / F / 165/165 / 155/165 / nnxnp / 1nn:1np / 32:53 / 5.2 / 1 / * / 12
EMPc101 / NA / - / - / - / - / - / - / - / -
EMPc102 / NI / 140 / 140 / - / - / - / - / - / -
EMPc104 / F / 87/87 / 85/87 / nnxnp / 1nn:1np / 64:21 / 21.8 / 1 / *** / 15
EMPc105 / F / 166/189 / 160/166 / efxeg / 1ee:1ef:1eg:1fg / 16:22:24:23 / 1.8 / 3 / - / 10
EMPc106 / NI / compl. / compl. / - / - / - / - / - / -
EMPc107.x / F / 136/138 / 136/136 / lmxll / 1ll:1lm / 49:35 / 2.3 / 1 / - / 16
EMPc107.y / F / n/n / 125/126 / nnxnp / 1nn:1np / 49:36 / 2.0 / 1 / - / 3
EMPc107.z / F / 156/160 / 121/149 / abxcd / 1ac:1ad:1bc:1bd / 23:21:20:21 / 0.2 / 3 / - / 13
EMPc108 / NI / compl. / compl. / - / - / - / - / - / -
EMPc11 / F / 139/139 / 139/143 / nnxnp / 1nn:1np / 47:38 / 0.9 / 1 / - / 11
EMPc110 / NI / 154 / 154 / - / - / - / - / - / -
EMPc111 / F / 84/91 / 84/84 / lmxll / 1ll:1lm / 49:36 / 2.0 / 1 / - / 7
EMPc114 / NA / - / - / - / - / - / - / - / -
EMPc115 / F / 222/240 / 216/237 / abxcd / 1ac:1ad:1bc:1bd / 16:30:21:18 / 5.4 / 3 / - / 9
EMPc116 / NI / compl. / compl. / - / - / - / - / - / -
EMPc117 / F / 104/104 / 91/104 / nnxnp / 1nn:1np / 36:49 / 2.0 / 1 / - / 7
EMPc119 / F / 192/198 / 195/197 / abxcd / 1ac:1ad:1bc:1bd / 15:26:20:22 / 3.0 / 3 / - / 8
EMPc12 / F / 99/139 / 139/n / lmxll / 1ll:1lm / 44:41 / 0.1 / 1 / - / 14
EMPc4 / NA / - / - / - / - / - / - / - / -
EMPc6 / NA / - / - / - / - / - / - / - / -
EMPc8 / NA / - / - / - / - / - / - / - / -
GD100 / F / 235/ n / 224/232 / abxcd / 1ac:1ad:1bc:1bd / 26:12:29:18 / 8.4 / 3 / * / 10 (RW6)
GD103.y / F / n/n / 79/n / nnxnp / 1nn:1np / 36:48 / 1.7 / 1 / - / 10
GD103.z / F / 109/117 / 119/ n / abxcd / 1ac:1ad:1bc:1bd / 26:15:23:21 / 3.0 / 3 / - / 5 (RW2)
GD112.y / NI / 228/228 / n/n / - / - / - / - / - / (RW6)
GD112.z / F / 238/238 / 236/n / nnxnp / 1nn:1np / 33:52 / 4.3 / 1 / * / 17
GD12 / F / 148/148 / 152/182 / nnxnp / 1nn:1np / 50:35 / 2.6 / 1 / - / 3 (RW10)
GD126 / F / 220/240 / 240/265 / efxeg / 1ee:1ef:1eg:1fg / 19:24:16:25 / 2.6 / 3 / - / 5 (RW2)
GD127 / F / 115/132 / 107/115 / efxeg / 1ee:1ef:1eg:1fg / 19:18:28:18 / 3.4 / 3 / - / 12 (RW13)
GD136 / F / 109/117 / 119/n / abxcd / 1ac:1ad:1bc:1bd / 26:15:24:20 / 3.3 / 3 / - / 5 (RW2)
GD142 / F / 133/139 / 119/135 / abxcd / 1ac:1ad:1bc:1bd / 23:22:24:16 / 1.8 / 3 / - / 9 (RW3)
GD144 / F / 225/239 / 233/241 / abxcd / 1ac:1ad:1bc:1bd / 18:32:12:22 / 10.1 / 3 / * / 12 (RW13)
GD147 / F / 145/150 / 137/152 / abxcd / 1ac:1ad:1bc:1bd / 18:20:28:19 / 3.0 / 3 / - / 13 (RW4)
GD15 / R / 144/144 / 144/190 / nnxnp / 1nn:1np / 50:35 / 2.6 / 1 / - / 11
GD153.y / ND / - / - / - / - / - / - / - / (RW3)
GD153.z / F / 118/141 / 109/130 / abxcd / 1ac:1ad:1bc:1bd / 19:24:15:27 / 4.0 / 3 / - / 17 (RW1)
GD154 / F / 199/199 / 189/204 / nnxnp / 1nn:1np / 43:40 / 0.1 / 1 / - / 16 (RW16)
GD158.y / NI / 125 / 125 / - / - / - / - / - / (RW6)
GD158.z / F / 147/164 / 143/143 / lmxll / 1ll:1lm / 47:38 / 0.9 / 1 / - / 9 (RW3)
GD161 / F / 182/187 / 182/193 / efxeg / 1ee:1ef:1eg:1fg / 19:20:27:18 / 2.4 / 3 / - / 13 (RW4)
GD162 / F / 213/213 / 215/236 / nnxnp / 1nn:1np / 29:55 / 8.1 / 1 / ** / 4 (RW5)
GD6.y / ND / - / - / - / - / - / - / - / (RW13)
GD6.z / F / 172/220 / 172/176 / efxeg / 1ee:1ef:1eg:1fg / 32:22:17:13 / 9.6 / 3 / * / 4 (RW5)
GD96 / F / 149/174 / 162/174 / efxeg / 1ee:1ef:1eg:1fg / 23:29:18:15 / 5.3 / 3 / - / 17 (RW1)
HB03AT.y / F / 324/333 / 324/333 / hkxhk / 1hh:2hk:1kk / 19:18:46 / 44.2 / 2 / *** / 16
HB03AT.z / F / 353/376 / 353/355 / efxeg / 1ee:1ef:1eg:1fg / 20:30:18:16 / 5.5 / 3 / - / 6 (FD6)
HGA8b.x / F / 157/161 / 128/157 / efxeg / 1ee:1ef:1eg:1fg / 25:20:16:24 / 2.4 / 3 / - / 3 (BH3)

Supplementary Table S1 (continued)

Loci / Amp.a / Fiesta alleles / Totem alleles / Segreg. type / Expected classes & ratios / Observed ratios / χ2 / df / Signifb. / Map positionc
HGA8b.y / F / 130/148 / 148/153 / efxeg / 1ee:1ef:1eg:1fg / 26:19:21:19 / 1.5 / 3 / - / 11 (FD11)
Hi02c07 / F / 116/150 / 110/114 / abxcd / 1ac:1ad:1bc:1bd / 27:17:21:19 / 2.7 / 3 / - / 1 (FD1)
Hi03d06 / F / 110/110 / 110/114 / nnxnp / 1nn:1np / 40:44 / 0.2 / 1 / - / 3 (FD3)
Hi04a05 / F / 193/203 / 199/205 / abxcd / 1ac:1ad:1bc:1bd / 18:22:19:25 / 1.4 / 3 / - / 9 (FD9)
Hi04b12 / F / 143/150 / 143/154 / efxeg / 1ee:1ef:1eg:1fg / 17:27:23:13 / 5.8 / 3 / - / 8 (FD8)
Hi04e04 / F / 223/242 / 210/213 / abxcd / 1ac:1ad:1bc:1bd / 26:25:20:12 / 5.9 / 3 / - / 16 (FD16)
Hi04g05 / F / 227/227 / 231/245 / nnxnp / 1nn:1np / 42:42 / 0.0 / 1 / - / 13 (FD13)
Hi05e07 / F / 209/211 / 191/211 / efxeg / 1ac:1ad:1bc:1bd / 15:18:19:26 / 3.3 / 3 / - / 9 (FD9)
Hi07b02 / NA / - / - / - / - / - / - / - / (FD4)
Hi07f01 / F / 200/207 / 203/213 / abxcd / 1ac:1ad:1bc:1bd / 17:30:16:18 / 6.4 / 3 / - / 12 (FD12)
Hi07h02 / F / 253/260 / 254/270 / abxcd / 1ac:1ad:1bc:1bd / 25:12:27:17 / 7.3 / 3 / - / 17 (FD17)
Hi16d02 / F / 140/140 / 125/140 / nnxnp / 1nn:1np / 43:41 / 0.1 / 1 / - / 11 (FD11)
Hi21g05.x / F / 151/151 / 148/151 / nnxnp / 1nn:1np / 37:46 / 1.2 / 1 / - / 1 (FD1)
Hi21g05.y / ND / - / - / - / - / - / - / - / (FD15)
Hi22f12 / F / 202/n / 196/208 / abxcd / 1ac:1ad:1bc:1bd / 25:18:22:19 / 1.4 / 3 / - / 5 (FD5)
Hi23g02 / F / 247/256 / 253/n / abxcd / 1ac:1ad:1bc:1bd / 21:17:28:17 / 3.9 / 3 / - / 4 (FD4)
Hi23g12.y / F / 232/232 / 224/n / nnxnp / 1nn:1np / 49:35 / 2.3 / 1 / - / 15
Hi23g12.z / F / 215/215 / 215/218 / nnxnp / 1nn:1np / 40:44 / 0.2 / 1 / - / 8 (FD8)
IPPN01 / NA / - / - / - / - / - / - / - / -
IPPN02 / F / 160/166 / n/n / lmxll / 1ll:1lm / 32:50 / 4.0 / 1 / * / 11
IPPN05 / F / 249/258 / 248/249 / efxeg / 1ee:1ef:1eg:1fg / 18:18:30:16 / 6.0 / 3 / - / 15
IPPN08 / NA / - / - / - / - / - / - / - / -
IPPN09 / NA / - / - / - / - / - / - / - / -
IPPN12 / NA / - / - / - / - / - / - / - / -
IPPN13 / NA / - / - / - / - / - / - / - / -
IPPN14 / F / 223/223 / 223/235 / nnxnp / 1nn:1np / 42:42 / 0.0 / 1 / - / 11
IPPN15 / F / 201/214 / 220/212 / efxeg / 1ee:1ef:1eg:1fg / 11:24:23:26 / 6.6 / 3 / - / 3
IPPN16 / NA / - / - / - / - / - / - / - / -
IPPN17 / NI / 161 / 208 / - / - / - / - / - / -
IPPN18 / F / 339/343 / 345/n / abxcd / 1ac:1ad:1bc:1bd / 14:27:18:26 / 5.6 / 3 / - / 6
IPPN19 / F / 230/238 / 238/238 / lmxll / 1ll:1lm / 39:45 / 0.4 / 1 / - / 8
IPPN20 / NI / 120 / 120 / - / - / - / - / - / -
KA14 / NI / 166 / 166 / - / - / - / - / - / (BH10)
KA16 / NI / 120 / 120 / - / - / - / - / - / (Ba11)
KA4b / F / 133/136 / 107/136 / efxeg / 1ee:1ef:1eg:1fg / 25:22:18:20 / 1.3 / 3 / - / 1 (BH8)
KA5 / NI / 216 / 126 / - / - / - / - / - / -
KB16 / NA / - / - / - / - / - / - / - / -
KU10 / NA / - / - / - / - / - / - / - / -
MS01a03 / NA / - / - / - / - / - / - / - / (FD10)
MS01a05 / F / 156/175 / 162/175 / efxeg / 1ee:1ef:1eg:1fg / 22:22:16:24 / 1.7 / 3 / - / 14 (FD14)
MS02a01 / F / 169/197 / 167/173 / abxcd / 1ac:1ad:1bc:1bd / 19:29:12:25 / 7.8 / 3 / - / 10 (FD10)
MS06c09 / NA / - / - / - / - / - / - / - / (FD7)
MS06g03 / F / 178/182 / 153/178 / efxeg / 1ee:1ef:1eg:1fg / 29:23:20:13 / 6.3 / 3 / - / 10 (FD10)
MS14b04 / F / 274/n / 268/n / efxeg / 1ee:1ef:1eg:1fg / 21:23:19:22 / 0.4 / 3 / - / 12 (FD12)
MS14h03 / F / 120/138 / 120/138 / hkxhk / 1hh:2hk:1kk / 23:38:23 / 0.8 / 2 / - / 3 (FD3)
MSS1 / NA / - / - / - / - / - / - / - / -
MSS10 / F / 223/217 / 217/n / lmxll / 1ll:1lm / 34:51 / 3.4 / 1 / - / 11
MSS13 / NA / - / - / - / - / - / - / - / -
MSS16 / F / 154/172 / 148/166 / abxcd / 1ac:1ad:1bc:1bd / 24:19:27:15 / 4.0 / 3 / - / 17
MSS3 / NA / - / - / - / - / - / - / - / -
MSS4.y / F / 303/310 / 303/310 / hkxhk / 1hh:2hk:1kk / 18:41:26 / 1.6 / 2 / - / 10
MSS4.z / F / 270/284 / 250/284 / efxeg / 1ee:1ef:1eg:1fg / 26:29:12:18 / 8.4 / 3 / * / 10
MSS5 / F / 110 / 110/112 / nnxnp / 1nn:1np / 36:49 / 2.0 / 1 / - / 8
MSS6 / NI / 273 / 273 / - / - / - / - / - / (FD4)
MSS9 / NA / - / - / - / - / - / - / - / -
NH001c / NA / - / - / - / - / - / - / - / (BH7)
NH002b / NA / - / - / - / - / - / - / - / (BH2)

Supplementary Table S1 (continued)

Loci / Amp.a / Fiesta alleles / Totem alleles / Segreg. type / Expected classes & ratios / Observed ratios / χ2 / df / Signif.b / Map positionc
NH004a / NI / 87 / 81 / - / - / - / - / - / (BH7)
NH005b / F / 333/360 / 337/360 / efxeg / 1ee:1ef:1eg:1fg / 23:12:24:26 / 5.6 / 3 / - / 8 (Ho11)
NH007b / F / n/n / 121/153 / nnxnp / 1nn:1np / 39:45 / 0.4 / 1 / - / 16 (BH10)
NH008b / F / 226/n / 226/n / hkxhk / 3h-:1kk / 66:19 / 0.2 / 1 / - / 4 (BH1)
NH009b / F / 147/164 / 143/143 / lmxll / 1ll:1lm / 45:39 / 0.4 / 1 / - / 13 (Ba11)
NH011b / F / 168/174 / 172/n / abxcd / 1ac:1ad:1bc:1bd / 30:15:22:18 / 6.0 / 3 / - / 4 (Ba12)
NH012a / NA / - / - / - / - / - / - / - / -
NH013a / NI / 132;168 / 132;168 / - / - / - / - / - / (BH8)
NH014a.y / F / 218/255 / 263/265 / abxcd / 1ac:1ad:1bc:1bd / 15:28:23:19 / 4.4 / 3 / - / 17 (BH1)
NH014a.z / F / 91/92 / 103/110 / abxcd / 1ac:1ad:1bc:1bd / 19:23:28:15 / 4.4 / 3 / - / 17 (BH1)
NH015a / F / 104/108 / 104/104 / lmxll / 1ll:1lm / 42:43 / 0.0 / 1 / - / 17 (BH1)
NH017a / NA / - / - / - / - / - / - / - / (BH5)
NH021a / NI / 137 / 137 / - / - / - / - / - / -
NH029a / F / 92/n / 89/100 / abxcd / 1ac:1ad:1bc:1bd / 23:20:22:16 / 1.4 / 3 / - / 9 (BH9)
NZ01a5 / NA / - / - / - / - / - / - / - / -
NZ01d12 / NA / - / - / - / - / - / - / - / -
NZ01d7 / NA / - / - / - / - / - / - / - / -
NZ02b1 / F / 214/234 / 225/228 / abxcd / 1ac:1ad:1bc:1bd / 35:13:22:15 / 14.0 / 3 / ** / 15 (PF15)
NZ03c1.u / F / 125/n / 125/n / hkxhk / 3h-:1kk / 70:15 / 1.3 / 1 / - / 10
NZ03c1.v / F / n/n / 236/n / nnxnp / 1nn:1np / 42:42 / 0.0 / 1 / - / 16
NZ03c1.w / F / 102/ n / 108/ n / efxeg / 1ee:1ef:1eg:1fg / 24:25:18:18 / 2.0 / 3 / - / 10 (RW6)
NZ03c1.x / ND / (FD6)
NZ03c1.y / ND / (FD1)
NZ03c1.z / ND / (FD2)
NZ04f3.y / F / 121/123 / 102/n / abxcd / 1ac:1ad:1bc:1bd / 27:16:26:16 / 5.2 / 3 / - / 17
NZ04f3.z / F / 104/106 / 104/108 / efxeg / 1ee:1ef:1eg:1fg / 11:10:34:20 / 19.8 / 3 / *** / 9 (FD9)
NZ04h11 / F / 206/224 / 200/n / abxcd / 1ac:1ad:1bc:1bd / 30:16:18:21 / 5.4 / 3 / - / 9 (FD9)
NZ05g8 / F / 120/136 / 105/122 / abxcd / 1ac:1ad:1bc:1bd / 22:22:26:15 / 3.0 / 3 / - / 4 (BH12)
NZ17e6 / NA / - / - / - / - / - / - / - / (RW7)
NZ22c6 / NA / - / - / - / - / - / - / - / -
NZ23f1 / R / 103/n / 103/n / hkxhk / 3h-:1kk / 60:25 / 0.4 / 1 / - / 17
NZ23g4 / NA / - / - / - / - / - / - / - / (FD6)
NZ26c6.x / F / 220/n / 220/230 / nnxnp / 1nn:1np / 37:48 / 0.7 / 1 / - / 3
NZ26c6.y / F / n/n / 163/n / nnxnp / 1nn:1np / 41:43 / 0.1 / 1 / - / 16 (RW15)
NZ26c6.z / F / 100/n / n/n / lmxll / 1ll:1lm / 41:44 / 0.1 / 1 / - / 6
NZ28f4 / F / 100/111 / 98/111 / efxeg / 1ee:1ef:1eg:1fg / 15:20:20:27 / 3.6 / 3 / - / 12 (PF12)
SdSSR / F / 183/210 / 173/179 / abxcd / 1ac:1ad:1bc:1bd / 26:21:22:16 / 2.4 / 3 / - / 7 (PF7)
UDP96-019 / F / 150/150 / 150/250 / nnxnp / 1nn:1np / 35:44 / 0.7 / 1 / 1 (TE8)
UDP98-416 / F / 75/75 / 75/88 / nnxnp / 1nn:1np / 50:35 / 2.6 / 1 / - / 11 (PcF6)

aInformative amplification using fluorescently labelled primers (F) or P33 labelled primers (R); non informative amplification (NI); no amplification (NA). For multi-locus primers, previously reported loci not detected (ND) in the cross are also included.

bSegregation distortion, when significant, was indicated as * (P ≤ 0.05), ** (P ≤ 0.01) or *** (P ≤ 0.001)

cLG in brackets correspond to other reported positions: ‘Fiesta’ × ‘Discovery’ (FD), Silfverberg-Dilworth et al. (2006); ‘Prima’ × ‘Fiesta’ (PF) Maliepaard et al. (1998); ‘Barlett’ × ‘Hosui’ (Ba, Ho or BH) Yamamoto et al. 2002c, ‘Rome Beauty’ × ‘White Angel’(RW)Hemmat et al. 2003,‘Texas’ × ‘Earlygold’ (TE) and Prunus cerasifera × ‘Felinem’(PcF) Dirlewanger et al 2004.