Table S2. Primers used to amplify fragments of BAC clones for use as restriction fragment length polymorphism probes, association mapping of Triticum accessions (Xfcp) (Table S1), BAC pool screening (RJM), and sequencing of Tsn1 from genomic DNA and cDNA.

Primers for the development of RFLP probes
Probe (marker designation) / BAC template / Forward primer / Reverse primer / Annealing temp.
FCG26 (Xfcg26(PT)) / 1089I4 / GACATGCCAATTGCTGGGAAGTCCA / CAGGTGAAGTGTCCTGACATGTTAT / 55
FCG30 (Xfcg30(WK95)) / 507H19 / CTACTTCATTAACATCCTTTCCTCC / TGAGGTTGCCATACTATCATAGGTC / 55
FCG31 (Xfcg31) / 507H19 / CAGACAAGAAACATCATCACAGTCC / GTCACATAAAGGTACCAATGGATTGGG / 55
FCG32 (Xfcg32(HP)) / 604L2 / TGAAGAAGAAGATCCTGCTGGCGAC / GGTGGTAGAGTATGTTTGCATGTGA / 55
FCG33 (Xfcg33) / 604L2 / CTCAGGAACATTGCCTTCTTCG / AGTCAAATCTGCTGCCGACATC / 55
FCG34 (Xfcg34(Tsn1))a / 604L2 / TTCCTCGGCGCCTCTCACTTTGGGC / GCTATCTCCTGGCATGCAATTAAAC / 55
FCG35 (Xfcg35(Tsn1))b / 604L2 / GCATTCCGTTTCCTCCAAGTTAGCG / GTACTTCCTGCGTGATACAAAGACAC / 55
Primers for markers used for association mapping
Marker / BAC template / Forward primer / Reverse primer / Annealing temp.
Xfcp394 / 1089I4 / GTAGCCTGCAGGTACAAACTGGA / CAGTGTTAAGAAGTGTGTTCTGGTC / 60
Xfcp620 / 507H19 / CATAACCTTCATACGGACTTGCTCAC / TATTCTTGCCAGTGTTGGGAGGG / 65
Xfcp623(Tsn1) / 604L2 / CTATTCGTAATCGTGCCTTCCG / CCTTCTCTCTCACCGCTATCTCATC / 60
Primers for repeat junction markers (RJMs) used for BAC pool screening
Marker / BAC template / Forward primer / Reverse primer / Annealing temp.
RJMI4 / 1089I4 / GGTTTAACACCAATCTCGATGGTAGAGG / TTTTGCCAAGTGTGTGTGCCAGGAGG / 60
RJML2a / 604L2 / TCCACTCTTGGTTATTCCGTGC / CGTTTTGACATCCATCTGCCAG / 60
RJML2b / 604L2 / TGTGTCGATATTGTTCGGCTACTG / TACACCTGTGGGTCATCAAGGC / 60
RJMH19 / 507H19 / TGTGGCGTATGGGATAAAGGG / TGCCTTCCTTCACTTGTTATGTCC / 60
PCR primers used to amplify Tsn1 genomic DNA fragments for sequencing
Fragment / Forward primer / Reverse primer
1 / PK.5U239F: TCCCTCTTGTTCCTCGTCTG / PK.1160R: ACTGCCGGTCCTGTCATAAA
2 / Pk.F893: CCGGAATTCATCAAAGATGG / PK.Fr8.B1: CCAAAATGGAGATGGTGCTAGATCC
3 / PK.lastex.F11: TTTGACCGCCTGCCAGAATG / PNL.B6: TGAAGAAGCAAAGCCCAAAGTG
4 / NB.F400: TAAGCCTACCGCGCGACATTGCTCC / LRR.R2400: AGTAGGACCCATATCCACGATCAGG
5 / LRR.F2300: TCCTCAAATGCATATGCCTGTGCAA / LRR.R3900: ATGCTCAAGGTTGGAAAGGGTACTG
6 / LRR.F3100: AAGCAGTTGTCACTATGCATTGCT / LRR.4700: ATGTCCGAGGGCAGCGTGCTCTCAG
7 / LRR.F4600: TAGAAACGAACTCTTGTTCCCTAAG / LRR.R6100: GTAACTGCTGGTATCAGCAACTTACC
PCR primers used to amplify the Tsn1 cDNA fragments from Langdon for sequencing
1 / PK.F17: TATACCGTTCGCAACTTTGG / PK.end2R: TCGTAGAGGAGGGCATATGAG
2 / PK.3pr.1F: TCCAGCAGAGGAACTACATCAAGTGAA / NB.5pr.3R: TGCCAAGGTTGTCTTGCCAATTCC
3 / NB.F24: TATCGCGAACAAACACCAAC / LRR.R1357: TGCATCACCGCGAAGTAGTA
4 / NB.F959: TCACCGGTCCATCTGGAATA / LRR.R4300: ACAAACCTCCTAGCAGCCACAGTC
5 / TILL. F2781: CAGTACCCTTTCCAACCTTGAGCAT / LRR.R3346: TCGAATCCTCAAAGCCTACC
PCR primers used to amplify the Tsn1 cDNA fragments from Aegilops speltoides accession PI542238 for sequencing
1 / PK.5U121F: TTCACTCTGCAACCATGCTC / PK.end2R: TCGTAGAGGAGGGCATATGAG
2 / PK.3pr.1F: TCCAGCAGAGGAACTACATCAAGTGAA / NB.5pr.3R: TGCCAAGGTTGTCTTGCCAATTCC
3 / NB.F24: TATCGCGAACAAACACCAAC / LRR.R1357: TGCATCACCGCGAAGTAGTA
4 / Sp.LRR.F3100: AAGCAGTTGTCACTATGCATTACT / Sp.LRR.R4700: ATGTCCGAGGGCAGCGTGCTGTCAG
5 / LRR. F2659: TAGAAACGAACTCTTGTTCCCTAAG / TILL.R4694: ATGTGAAAGGGTTCAGCCATTGAT

aProbe FCG34 was derived from the NBS domain of Tsn1.

bProbe FCG35 was derived from the S/TPK domain of Tsn1.