TABLE 1.
Markers sequenced in this study and their locations in the third F. graminearum genome assembly
| Markera | Location on genetic map (cM) | Origin
|
Size (bp) | SC | Position | ||
|---|---|---|---|---|---|---|---|
| R-5470 | Z-3639 | PH-1 | |||||
| Chromosome 1 | |||||||
| EATMCA0383J | 6A (0.0) | + | − | − | 291 | No hits | |
| ECCMCG0580K | 6 (10.1) | − | + | +b | 422 | 1 | 237025-237445 |
| EAAMTG0323J | 6E (14.1) | + | − | − | 266 | No hits | |
| EATMCG0731K | 6E (14.1) | − | +b | + | 489 | 1 | 535968-536430 |
| EAAMAA0090J | 5E (28.0) | + | − | − | 65 | 1 | 840115-840179 |
| EAAMGC0435J | 5E (28.0) | + | − | − | 392 | 1 | 1139718-1140109 |
| EAAMCA0404J | 5E (28.0) | + | − | − | 373 | 1 | 1250068-1250438 |
| EAAMAC0295K | 6F (35.0) | − | +b | + | 239 | 1 | 840115-840353 |
| EAAMCA0557Jc | 6F (35.0) | + | − | − | 466 | 1 | 1600947-1601333 |
| EAAMAA0717J | 6G (36.0) | + | − | − | 610 | 1 | 1885126-1885671 |
| EGAMAT0721J | 5D (38.0) | + | − | − | 614 | 1 | 2144020-2144633 |
| EAAMCA0246J | 5G (47.0) | − | +b | + | 201 | 1 | 2618374-2618574 |
| EAAMAG0388K | 5H (51.7) | − | +b | + | 349 | 1 | 3024847-3025195 |
| EAAMAT0097J | 5J (59.7) | + | − | − | 62 | No hits | Exd |
| EAAMGC0111K | 5J (59.7) | − | +b | + | 81 | 1 | 3383282-3383362 |
| EATMCA0352J | 6M (59.7) | + | − | − | 223 | 1 | 3513107-3513327 |
| ECCMGT0362K | 6I (59.7) | − | + | +b | 243 | 1 | 3544782-3545025 |
| EATMCG0165Kc | 5K (61.7) | − | + | +b | 84 | 1 | 4490384-4490412 |
| EAAMCC0116J | 6K (62.7) | + | − | − | 82 | 1 | 4905538-4905617 |
| EATMGA0374J | 4 (6.0) | + | − | − | 327 | 1 | 6908379-6908705 |
| ECCMGT0614K | 4AC (36.6) | − | + | − | 505 | 1 | 7073041-7073543 |
| EATMGA0676K | 4AA (38.6) | − | + | +b | 503 | 1 | 7239867-7240369 |
| EAAMAC0217J | 4T (77.0) | + | − | − | 183 | 1 | 7935713-7935891 |
| EAAMAT0192K | 4P (92.0) | − | +b | + | 160 | 7 | 924207-924366 |
| MGV1 | MGV1 (94.0) | 7 | 1486778-1488707 | ||||
| EATMCA0305J | 4O (95.0) | + | − | − | 195 | 7 | 1566369-1566546 |
| EGAMTA0339Jc | 4K (112.1) | + | − | − | 280 | 7 | 2526164-2526276 |
| ECCMGT0582K | 4 (136.2) | − | + | − | 478 | 7 | 2536241-2536718 |
| EATMCA0199J | 4I (138.2) | + | − | − | 94 | 7 | 2259055-2259146 |
| EGAMAT0378Kc | 4F (148.3) | − | + | − | 361 | 7 | 1959874-1959920 |
| EGAMAA0344J | 4D (150.3) | + | − | − | 289 | 7 | 1767528-1767815 |
| EAAMGC0119K | 4C (151.3) | − | +b | + | 87 | 7 | 1706519-1706605 |
| Chromosome 2 | |||||||
| ECCMGT0714J | 8 (28.2) | + | − | − | 461 | 5 | 3023758-3024213 |
| EAAMAC0350K | 8G (32.2) | − | + | − | 294 | 5 | 3000989-3001282 |
| EAAMCA0491Jc | 7 (32.2) | + | − | − | 422 | 5 | 3044032-3044370 |
| EAAMAG0158K | 7P (33.2) | − | +b | + | 121 | 5 | 3073233-3064348 |
| EAAMGC0320J | 7L (47.2) | + | − | − | 263 | 5 | 2476839-2477096 |
| Elongation factor gene | Elongation factor gene (72.9) | 5 | 531518-532161 | ||||
| ECCMGT0315J | 7 (84.2) | + | − | − | 257 | 5 | 1360303-1360558 |
| EAAMAG0123K | 7B (93.5) | − | + | − | 90 | No hits | |
| EAAMAA0675Kc | 7B (93.5) | − | + | − | 559 | 5 | 356549-356977 |
| EGAMTC0740K | 8C (94.5) | − | + | +b | 646 | 5 | 284175-284812 |
| EGAMAT0181J | 8B (95.5) | + | − | − | 144 | 5 | 790865-791004 |
| EAAMCC0237J | 7A (95.5) | − | +b | + | 196 | 5 | 195828-196020 |
| EAAMTG0298J | 1A (99.5) | + | − | − | 240 | 2 | 5047963-5048198 |
| ECCMCG0193K | 1 (102.5) | − | + | +b | 163 | 2 | 4897838-4898000 |
| EAAMAT0263K | 1D (103.5) | − | +b | + | 214 | 2 | 4882860-4883073 |
| EATMCG0329J | 1E (122.5) | + | − | − | 271 | 2 | 4539360-4539704 |
| ECCMGT0168J | 1F (131.6) | + | − | − | 74 | 2 | 4534991-4535047 |
| Reductase gene | Reductase gene (144.6) | 2 | 4221356-4222230 | ||||
| EAAMAC0392K | 1I (164.2) | − | +b | + | 355 | 2 | 3837149-3837503 |
| EATMCA0327K | 1I (164.2) | − | + | +b | 266 | 2 | 3827713-3827978 |
| EAAMAA0347J | 1L (174.4) | + | − | − | 290 | 2 | 3607835-3608127 |
| EATMGA0657J | 1 (182.6) | + | − | − | 480 | 2 | 3402701-3403180 |
| TRI5 | TRI5 (183.6) | 2 | 3376567-3377751 | ||||
| EGAMAA0177K | 1 (197.4) | − | + | − | 139 | 2 | 2929953-2930089 |
| EAAMCA0294K | 1P (216.3) | − | +b | + | 237 | 2 | 2833524-2833760 |
| EGAMTC0600J | 1 (217.3) | + | − | − | 496 | 2 | 2889043-2889532 |
| EAAMAA0377K | 1 (249.5) | − | +b | + | 329 | 2 | 2354068-2354396 |
| EAAMTG0185K | 1AD (256.6) | − | + | − | 151 | 2 | 2505292-2505438 |
| EAAMGC0387K | 1 (289.1) | − | +b | + | 354 | 2 | 2001562-2001915 |
| EAAMAG0727K | 1Z (307.5) | − | +b | + | 624 | 2 | 1817487-1818110 |
| EAAMCA0283J | 1Z (307.5) | + | − | − | 230 | 2 | 1817882-1818110 |
| EATMCA0194K | 1V (308.5) | − | + | +b | 163 | 2 | 1676958-1677120 |
| ECCMGT0347J | 9N (17.0) | + | − | − | 229 | No hits | Ex |
| EGAMAT0360J | 9N (17.0) | + | − | − | 307 | 2 | 1096103-1096409 |
| ECCMAT0288J | 9M (18.0) | + | − | − | 180 | 2 | 764688-764863 |
| EGAMTC0432K | 9L (19.0) | − | + | − | 384 | 2 | 646379-646759 |
| ECCMGT0446J | 9K (20.0) | + | − | − | 332 | 2 | 465211-465522 |
| EAAMCA0680J | 9D (30.0) | + | − | − | 578 | No hits | |
| EAAMAT0100K | 9C (32.0) | − | +b | + | 72 | 2 | 90866-90937 |
| EATMCA0149K | 9B (33.0) | − | + | +b | 107 | 2 | 200829-200935 |
| Chromosome 3 | |||||||
| ETGMGA0314K | 2H (33.0) | − | + | − | 259 | No hits | |
| EAAMGC0142J | 2H (33.0) | + | − | − | 107 | No hits | |
| EATMGA0624K | 2I (35.0) | − | + | − | 508 | No hits | |
| EAAMAT0513K | 2J (36.0) | − | + | − | 430 | No hits | |
| EATMCG0537K | 2J (36.0) | − | + | +b | 445 | 3 | 360587-361031 |
| EATMCA0309K | 2N (72.0) | − | +b | + | 250 | 3 | 3634867-3635114 |
| EAAMAA0185J | 2O (73.0) | + | − | − | 154 | 3 | 3877869-3878022 |
| EAAMCA0307K | 2 (76.0) | − | +b | + | 249 | 3 | 4147664-4147851 |
| EATMGA0797K | 2R (82.0) | − | + | +b | 660 | 3 | 5050557-5051215 |
| EGAMAT0800K | 2T (85.0) | − | + | +b | 751 | 8 | 1160984-1161728 |
| TRI15 | TRI15 (97.0) | 8 | 589117-591752 | ||||
| ECCMCG0652K | 2V (125.0) | − | + | − | 536 | 8 | 70801-71330 |
| EATMCA0602K | 2 (129.0) | − | + | − | 492 | 9 | 668627-669118 |
| EAAMTG0174J | 2W (130.0) | + | − | − | 133 | 9 | 679601-679733 |
| ETGMGA0127K | 2 (132.0) | − | + | − | 93 | 9 | 588753-588845 |
| EAAMAG0314K | 2X (141.0) | − | + | +b | 253 | 9 | 406495-406747 |
| ECCMAT0417J | 2AB (150.0) | + | − | − | 322 | 9 | 58940-59256 |
| EGAMTC0386K | 2AB (150.0) | − | + | − | 289 | 9 | 54392-54679 |
| EAAMGC0297K | 2 (178.0) | − | +b | + | 241 | 8 | 276275-276515 |
| EATMGA0279K | 2 (179.0) | − | + | +b | 164 | 8 | 275985-276148 |
| EAAMAT0323J | 2AE (184.0) | + | − | − | 264 | 8 | 376598-376867 |
| Chromosome 4 | |||||||
| ECCMAT0358J | 3A (15.0) | + | − | − | 244 | 6 | 389556-389742 |
| EATMCA0377Jc | 3B (18.0) | + | − | − | 279 | 4 | 4567231-4567377 |
| EAAMCA0271J | 3 (70.0) | + | − | − | 221 | 6 | 1003343-1003560 |
| EAAMAC0186K | 3 (73.0) | − | +b | + | 153 | 6 | 1091170-1091323 |
| EAAMAA0119K | 3F (77.0) | − | +b | + | 96 | 6 | 1027866-1027961 |
| ECCMCG0418J | 3H (78.0) | + | − | − | 330 | 6 | 1014868-1015075 |
| EATMGA0455J | 3H (78.0) | + | − | − | 397 | 6 | 1206658-1207048 |
| ECCMAT0528J | 3J (80.0) | + | − | − | 441 | 6 | 1232353-1232789 |
| ETGMGA0145J | 3J (80.0) | + | − | − | 107 | 6 | 1425042-1425148 |
| EAAMCC0239J | 3K (81.0) | + | − | − | 196 | 6 | 2006853-2007044 |
| ECCMAT0278K | 3K (81.0) | − | + | +b | 150 | 6 | 2194012-2194161 |
| ECCMGT0373K | 3K (81.0) | − | + | +b | 270 | 6 | 2529420-2529689 |
| TRI101 | TRI101 (97.0) | 4 | 4787612-4788885 | ||||
| Phosphate permease gene | Phosphate permease gene (98.0) | 4 | 4784489-4785396 | ||||
| ECCMAT0117J | 3O (103.0) | + | − | − | 69 | 4 | 4743042-4743110 |
| ETGMGA0677K | 3S (109.0) | − | + | − | 570 | 4 | 4382673-4383728 |
| ECCMCG0627K | 3S (109.0) | − | + | +b | 520 | 4 | 4371100-4371619 |
| ECCMGT0251K | 3T (110.0) | − | + | +b | 149 | 4 | 4264059-4264205 |
| EAAMAC0786K | 3U (111.0) | − | +b | + | 734 | 4 | 4316734-4317466 |
| ECCMCG0544J | 3 (114.0) | + | − | − | 448 | 4 | 4191107-4191553 |
| EAAMAT0188J | 3X (125.0) | + | − | − | 155 | 4 | 3896166-3896295 |
| EAAMAT0270K | 3 (127.0) | − | + | − | 217 | 4 | 3917150-3917362 |
| EATMCA0212J | 3Z (131.0) | + | − | − | 102 | 4 | 4039381-4039473 |
| EATMGA0123Jc | 3 (132.0) | + | − | − | 68 | 4 | 4039234-4039279 |
| EAAMTG0506K | 3 (168.0) | − | + | − | 431 | 4 | 3644296-3644726 |
| EAAMAG0216K | 3AC (171.0) | − | +b | + | 183 | 4 | 3670012-3670194 |
| EATMGA0170K | 3AF (175.0) | − | + | − | 133 | 4 | 3293782-3293914 |
| EAAMCA0327J | 3AG (177.0) | + | − | − | 270 | 4 | 2537372-2537635 |
| EAAMCC0186K | 3AI (180.0) | − | +b | + | 151 | 4 | 2244914-2245064 |
| EATMCG0704J | 3AL (186.0) | + | − | − | 547 | 4 | 1201133-1201677 |
| EATMCA0196J | 3AM (187.0) | + | − | − | 167 | 4 | 847099-847265 |
| ECCMGT0482K | 3 (191.0) | − | +b | + | 413 | 4 | 388151-388562 |
a
The markers were designated in previous work (19) using the nomenclature EXXMYY0000Z, where EXX indicates the EcoRI primer (E) with two additional selective nucleotides (XX), MYY indicates the MseI primer (M) with two additional selective nucleotides (YY), the four-digit number is an estimate of the size of the band (in base pairs) (see the text for the size correction equation), and Z is either J or K and indicates the parent that was the source of the “band present” allele or was the source of the larger band of a size polymorphism.
b
Origin of sequenced marker band.
c
Sequences partially present in the PH-1 genome database.
d
Ex, hits on the excluded reads of the PH-1 genome database.