Table S1. List of the Markers Used for Foreground Selection(Xu Et Al. 2010)

Table S1. List of the markers used for foreground selection(Xu et al. 2010)

Marker names / Primer sequences (5'–3') / Annealingtemperature (°C) / Marker position on ~172 kb qHSR1 region
PHMI / For:GTATTTCTACCAGCGTGGCCT / 60 / 0kb
Rev:GACAAGCTGCAGATCGAAGA
STS1M1 / For:TCGTGACGGACCTGTAGTGC / 60 / 7.18kb
Rev:TCGCGGTTCAGAAGAACAAC
STS1M2 / For:CGAGGTGTCGAAGATCAAGA / 60 / 7.27kb
Rev:CGTTGATGACAGTGCTCTGC
SCAR6765 / For:CATGTGCTGACCGACCATTC / 66 / 26.4kb
Rev:GGAGTGCGATGTCTACAGCT
SCAR2M1 / For:GTGGTACTGGCGAGCAACAG / 60 / 81.1kb
Rev:CTGTGCTGTGCAGCCTATCA
SCAR2M4 / For:CACGTTGTGACTCAAGATCG / 60 / 99kb
Rev:ATCAAGGACCATCAGCACAG
SCAR2M10 / For:CCTCCTCTCCATCTGGTCCA / 60 / 141.5kb
Rev:CGTGTGCTTGGAAGAATCTC
STS3M1 / For:GCTAGATAGCTGCTTCTTCC / 60 / 162.3kb
Rev:GTACCTACGATTCGGCAGAA
CAPS3M3 / For:CGAGGTGTCAGCATAGATGA / 60 / 170.1kb
Rev:TGTGTCACAGCCTTAGGAGG
STS148 / For:CTTCCATCGGTACTCCATTC / 60 / 172.1kb
Rev:TTCCCCAGGTGTGAGAAATC

For, forward primer; Rev, reverse primer

Table S2. The polymorphisms at the 10 markers in the qHSR1 region between the donor parent Ji1037 and each of 10recurrent parents

Markers / Recurrent parents
Ji853 / 444 / 98107 / 99094 / Chang7-2 / V022 / V4 / 982 / 8903 / 8902
PHMI / √ / √ / √ / √ / √ / √ / √ / √ / √ / √
STS1M1 / √ / √ / √ / √ / √
STS1M2 / √ / √ / √ / √ / √
SCAR6765 / √ / √ / √ / √ / √
SCAR2M1 / √ / √ / √ / √ / √
SCAR2M4 / √ / √ / √ / √ / √
SCAR2M10 / √ / √ / √ / √ / √ / √ / √ / √ / √
STS3M1 / √ / √ / √ / √ / √ / √ / √ / √
CAPS3M3 / √ / √ / √ / √ / √
STS148 / √ / √ / √ / √ / √ / √ / √ / √

The 10 qHSR1-anchored markerswere arranged in order from distal to proximal positions of the qHSR1 region. ‘√’ indicated the presence of anunambiguous and polymorphic marker between the donor Ji1037 and each of 10 recurrent parents. ‘√’ indicated the marker selected for foreground selection.

Table S3. Polymorphic markers used for recombinant selection

Recurrent parents / Polymorphic markers
Ji853 / umc2202, umc1516, umc1525, 2S8, STS661, STS1944, umc2214
444 / umc1947, umc1516, umc1525, 2S8, STS661, STS1944, umc2214
98107 / umc1947, umc1516, umc1525,2S8, STS661, STS1944, umc2214
99094 / umc2202, umc1516, umc1525, 2S8, STS661, STS1944, umc2214
Chang7-2 / umc2202, umc1516, umc1525, 2S8, STS661, STS1944, umc2214
V022 / umc1551, umc1525, 2S8, STS661, umc2214
V4 / umc1551, umc1525, 2S8, STS661, STS1944, umc2214, phi101049
982 / umc2202, umc1551, umc1525, 2S8, STS661, umc2214
8903 / umc2202, umc1551, umc1525, 2S8, STS661, umc2214, phi101049
8902 / umc2202, umc1551, umc1525, 2S8, STS661, umc2214, phi101049

Table S4. Distribution of markers across 10 maize chromosomes for background selection

Recurrent parents / Chr1 / Chr2 / Chr3 / Chr4 / Chr5 / Chr6 / Chr7 / Chr8 / Chr9 / Chr10 / Total number of the markers
Ji853 / 4 / 5 / 4 / 4 / 5 / 3 / 4 / 4 / 3 / 4 / 40
444 / 4 / 5 / 4 / 3 / 5 / 4 / 4 / 4 / 3 / 5 / 41
98107 / 4 / 5 / 4 / 4 / 5 / 4 / 4 / 4 / 3 / 4 / 41
99094 / 4 / 4 / 4 / 4 / 5 / 4 / 4 / 4 / 3 / 4 / 40
Chang7-2 / 4 / 5 / 4 / 4 / 5 / 4 / 4 / 4 / 3 / 4 / 41
V022 / 4 / 4 / 4 / 4 / 3 / 3 / 3 / 4 / 3 / 5 / 37
V4 / 4 / 4 / 4 / 4 / 4 / 4 / 3 / 4 / 3 / 5 / 39
982 / 4 / 3 / 3 / 4 / 3 / 4 / 3 / 3 / 3 / 3 / 33
8903 / 4 / 3 / 3 / 5 / 5 / 4 / 3 / 3 / 3 / 6 / 39
8902 / 4 / 3 / 4 / 4 / 5 / 4 / 3 / 3 / 3 / 5 / 38

Table S5. The resistant BC5recombinants with the highest recoveryratesof the recurrent backgrounds

BC5 Recombinants / Recurrent parents / Number of the heterozygous markers / Number of the homozygous markers / Recovery rates
G101-17 / Ji853 / 3 / 37 / 92.5%
G138-43 / 444 / 3 / 38 / 92.7%
G111-48 / 98107 / 1 / 40 / 97.6%
G120-6 / 99094 / 4 / 36 / 90.0%
G124-4 / Chang7-2 / 4 / 37 / 90.2%
G127-57 / V022 / 1 / 36 / 97.3%
G144-6 / V4 / 4 / 35 / 89.7%
G147-32 / 982 / 2 / 31 / 93.9%
G152-17 / 8903 / 2 / 37 / 94.9%
G153-1 / 8902 / 2 / 36 / 94.7%