Supplemental Data
Supplemental Table 1. Primer names and sequences of markers, southern blot probe and LA-PCR
Primer / Marker type / Sequences (5’-3’)umc2021 / SSR / Forward: AACTCAAGCTCGGAATGTACTGC
Reverse: CGATACTGATCTACTTCACGCTGG
IDPg01A / InDel / Forward: CGGTAACTTTTCGTCAGGC
Reverse: TCCTCATACGATGGACTGATA
IDPg08A / InDel / Forward: TAAATGAAGTCAGGTGCT
Reverse: CATCCCAAGAATGATCGA
IDPg09A / InDel / Forward: TAAATGAAGTCAGGTGCT
Reverse: CATCCCAAGAATGATCGA
IDPg10A / InDel / Forward: TCCTCCAGCGACAGTTTG
Reverse: AGTTCTTGATGAAGGTGGTG
IDPg12A / InDel / Forward: AGTCATAGACGAACACCCAA
Reverse: GACACGAATTTTGGTTGC
IDPg14A / InDel / Forward: ACCCTGATCACCCGGTGC
Reverse: TTGGGGTTGGGAGGAAGC
IDPg15A / InDel / Forward: GCGGTCCATTTGACAACT
Reverse: GACACGAAAACCAAGCGA
IDPg16A / InDel / Forward: AGCAGGCAGGGAAATGTCCT
Reverse: CTGAGGTTGCATTTTGTTGGTTC
IDPg17A / InDel / Forward: AGGCGTCGCACCTGATGA
Reverse: CCTTGTAACCCGCCGTCAC
IDPg18A / InDel / Forward: AGCTTCAAACCCTCTTCCTGC
Reverse: GCAGGAAGAGGGTTTGAAGCT
SNPg19A / SNP / Forward: TCCGATCACATTCCTCTCAG
Reverse1: TCCAACTTACATACAACTCTCGT*a
Reverse2:
CACGACGTTGTAAAACGAC#TCCAACTTACATACAACTCTAAC*b
umc1038 / SSR / Forward: CGTCACACTCCTCTGCCACTT
Reverse: GAGGATTCAGAACTCGACTCGG
Probe(G14) / Forward: TTGACTCTTCTCAGCCCTAT
Reverse: GCAAGAAATGGAACGAAAG
Probe(G15) / Forward: TTGTTGGCGTTATCCAGTC
Reverse: CTTCGATTAAATGGGTGGTT
Probe(G16) / Forward: TGTGGAGGGCAGTAAGGA
Reverse: TGATCGAGACGAGACCCT
Probe(G17) / Forward: GGTCAGCCCAACCTAACCTAAT
Reverse: AATCCAATCCTGGTTTATTTCG
Probe(G18) / Forward: CAGAGCACAAAACAAAGCAAG
Reverse: TGGGAATACTTGCCAGACCT
Probe(G19) / Forward: GCATATCCGATTCCGACATCCC
Reverse: TTCACCTGCTGCCTACTGCTCC
F1 / ATGTCGCCAAAATTACATACAATGCAACATCG
R1 / GAGTTGAAATGCCTGAACTTCTGAAGTTAGGA
F2 / TTGATCAGGACTTGAGAGCCTGTTAATCGTGA
R2 / CTCAAGGTACCCGCTGATTGCCGTTCTAAAGA
F3 / AGAAGTATGTCTTTGGCTTGGGA
R3 / CCTGTCACTGTCACTTGATAATGG
F4 / CGCACAGAGAAGCGAGAGGG
R4 / CGTATCATCCCAGGGGCAGA
F5 / ATCCAAAGCAATTGCGCGCA
R5 / CGCAGGAGTCAGAAACGCCC
F6 / CTGTTTGGGGCTTGTGCGGC
R6 / GCACCGTCGACGCTCTCCTT
*a and *b are consecutive three SNPs between P1and P2.
CACGACGTTGTAAAACGAC#: A 19 bp specific sequence from Escherichia coli’ DNA sequence.
Supplemental Table 2 The homologous genes between maize and rice
Maize / Rice / Homologous protein function / E value*G01 / Os04g06783 / WD-40 repeat domain containing protein [Oryza sativa (japonica cultivar-group)]( BAD25345) / 1e-102
G02 / Os04g06784 / Zf-Dof domain containing protein [Oryza sativa (japonica cultivar-group)] (AAS19279) / 1e-32
G03 / Os04g06788 / Similar to N-acetylglucosaminyl-phosphatidylinositol de-N-acetylase-related [Arabidopsis thaliana] ( NP_191372) / 4e-67
G04 / Os04g06791 / Hypothetical protein [Vitis vinifera]( CAN72815) / 6e-50
G05 / Os04g06794 / Hypothetical protein / 6e-98
G06 / Os04g06798 / Zinc finger ring-type domain containing protein [Vitis vinifera] (CAN81290) / 9e-102
G07 / Os04g06799 / Hypothetical protein [Vitis vinifera] (CAN83474) / 6e-44
G08 / Os04g06804 / Similar to isoamyl acetate-hydrolyzing esterase / 3e-175
G09 / Os04g06815 / Hypothetical EF hand protein [Arabidopsis thaliana] (NP_194508) / 6e-23
G10 / Os04g06819 / Acyl-CoA binding domain containing protein [Arabidopsis thaliana] (NP_194507) / 7e-87
G11 / Os04g06820 / Autophagy-related protein 4b / 0.0
G12 / Os04g06821 / C2 domain containing protein / 1e-32
G13 / Os04g06825 / Putative Asparaginase2 family protein [Arabidopsis thaliana] (NP_191968) / 2e-57
G14 / Os04g06828 / Putative potassium efflux system protein family protein [Arabidopsis thaliana] (NP_171684) / 5e-163
G15 / Os04g06829 / DNA mismatch repair protein (MSH3 )[Arabidopsis thaliana] (NP_194284) / 2e-142
G16 / Os04g06831 / cleavage and polyadenylation specificity factor 5 (Cpsf5) (2CL3_A) / 3e-53
G17 / Os04g06837 / peroxisomal-CoA synthetase [Capsicum annuum] (AAL29212) / 1e-132
G18 / Os04g06838 / Predicted protein [Arabidopsis thaliana] (NP_192898) / 0.0
G19 / Os04g06839 / DNA-binding protein [Gossypium hirsutum] (ABO42262) / 1e-32
*The E-values from BLASTX.