ELECTRONIC SUPPLEMENTARY MATERIAL

Fine mapping of the dull fruit skin gene D in cucumber(Cucumis sativus L.)

MOLECULAR BREEDING

Xu-Qin Yang1, Wei-wei Zhang2, Yue Li1, Huan-Le He1, Bei-Bei Bie1, Guo-Liang Ren1,Jun-Long Zhao1, Yun-Li Wang1,Jing-Tao Nie1,Jun-Song Pan1*, Run Cai1*

1 School of Agriculture and Biology, Shanghai Jiao Tong University, Dongchuan Road, Minhang District, Shanghai 200240, China

2 Shanghai Chenshan Plant Science Research Center, Chinese Academy of Sciences, Chenshan Botanical Garden, Shanghai 201602, China

*Corresponding authors. J.S. Pan, E-mail:;R. Cai, E-mail:

SupplementaryTable S1The primers used toconstructthe genetic map of the dull fruit skin geneD

Markers / Forward primer sequences(5’-3’) / Reverse primer sequences(5’-3’) / Polymorphism
SSR04812 / AGATATGTAGACCATCCAAAGCA / TCTTTTCATACGTGGGTCCTG / Co-dominant
SSR07100 / CACACCATTTACGGTTATGGG / CATTTGGTTCAGAAAGGGGA / Co-dominant
SSR03529 / TGAATTGAATAGACACAACAATATGC / ACATGTTGGGACTCCATGTG / Co-dominant
SSR16068 / TATAACCCCGTCTTCTCCCC / GGGAAACCCCTTTGACTCTC / Co-dominant
SCZ24 / CCGGAGCTGTGTAATGGAAGAA / AATTTGAGATATAACCTACGTGA / Co-dominant
SCZ69 / TTCCGAAAGCAGGAGAGTCAAT / GCCAGATTTGGTATATCAAACAG / Dominant
SSR16203 / TCGAGGTAAATCAAAACCGA / ATGTGTCAAACCCACCCATT / Co-dominant
SSR04142 / GCAAAAGTAGAAAAGCGCGA / TGTTGTCATTACCAAATTGATTCT / Co-dominant
SSR15818 / GGACATGTCAACTCCCCTGT / GCCTCTAGCCTGAAAGACCA / Co-dominant
SSR15321 / TCAATGTAGGTAGAGCACCACG / TCCAATTGCTTGACCAATGA / Co-dominant
SSR04644 / CCAAAAGCTTTCTCAAATAATGG / CTCTGCTCTCCATTTACGCC / Co-dominant

Note: These 11 markers were reported in Zhang et al. (2012).

SupplementaryTable S2 The primers used for semi-quantitative RT-PCR ananlysis of 31 candidate genes

Genes ID / Forward primer sequences(5’-3’) / Reverse primer sequences(5’-3’)
Csa016877 / TCAGTCGTCGTTCCAGTTT / CCCATAGCGGATTTCAGT
Csa016878 / AAGAAAGTCAGAAGTGAAGGTG / AAGTGGTATGCTCCCAAAGA
Csa016879 / CGTTCTCATTTTAGCATTTG / CCATAGAACCACAGCGACT
Csa016880 / ATTGAACCAAAGGCTACTATGT / GCAACAACCCTCATTTTCTC
Csa016881 / TACGGAGGAAGGGTAGAGAT / CTGGATAACACTGCCAATAA
Csa016882 / TCTTTCTAACCTCAAAACCAA / CAGTTCCCATCTCCATCTT
Csa016883 / TACCAAACTTTCGCTCCTG / CTAAATGGAAAGGGTGGC
Csa016884 / CAGTGCTCTTCTTAGTGGGTAT / TTGGAATGATGCTGCTTT
Csa016885 / ATGGCACTTTGCTCTTCTG / AACCTTGCCAGATTCAGC
Csa016886 / CTCGAAGCAAATCACATAAG / TTTCTCTTCAATCAACAGCA
Csa016887 / TACTGGATAAACTGAGGAGATA / GCTTTGTAACTTGGCTTCC
Csa016888 / TTGTTGGGACATTGGGATA / ATGGGAGTCTGCTATTCTTG
Csa016889 / TTAGTGGTGGCTTTACGAA / GCACCAAAAGCAGAGAAA
Csa016890 / TCTCCTACGCTACAGTTTCAC / TCTTCTTCAAATCTTCTCGTT
Csa016891 / ATCCACAGAGGGAGGTCA / TATTGACACGACCCAAGTTAT
Csa016892 / TGGTGTGATGACCCCGAC / GATAAAACTACCGAAGATGCTC
Csa016893 / CTTCACAGTCCCATCGTCT / CTCAACGATGACGAAAAGC
Csa016894 / GATTTCAATGCCCACGAC / TGACTTTGGCAGCGGTAG
Csa016895 / AACTACCAACCTAACCCTGA / CTTGGAGTCTTCATTAGTGCT
Csa016896 / AGGTTCCCCTTCTGCGTA / CCATACCGACCTGGAGTTC
Csa016897 / ATCAATGACTTGTAATGGGACT / CAAATAATGTTGCGAGTCCT
Csa016898 / CAGGGATGGCGAGAAGTG / TTCTTTACTCCCTCTCTTCAGC
Csa016899 / AATAAATGCCTGAAAGATGAG / ATGCCATCAACAAACTCTTC
Csa016900 / ATGAGCCAAATAACAACCG / CGCCCTTCCCTACACTGA
Csa016901 / AAGGCAGCAGGCTATGTG / TGACAATCACCACAAACTCGT
Csa016902 / TCCCTACGGTTGAGATTTC / GCTCCTTGACCGTGTATCT
Csa016903 / CTGCTTCATCTGGGTTCTAAT / CCACCTCTGATTCCTCCA
Csa016904 / TAGATGTGGCTGTTTCGC / CTGGTTTGAGTTGCCTTTT
Csa016905 / GAAGAAGGTCCAACAGAGC / CTAAGTCGTCCACTCCCAT
Csa016906 / TTAGCGAGGTTCCAGTTAGA / ACTCCTTCCATTCCCTCAA
Csa016907 / TATTCAACATTGTCGGCG / AGCAAGATTCAACTCCTGTG
Actin / TCGTGCTGGATTCTGGTG / GGCAGTGGTGGTGAACAT

Note: The primer sequences of cucumber Actin gene were reported in Li et al. (2009).

Lines / Origin / D/G / Markes / Lines / Origin / D/G / Markes
SSR37 / SSR112 / SSR37 / SSR112
S106 / America / D / A / A / S02 / Holand / G / B / B
S107 / America / D / A / A / S17-2 / Holand / G / B / B
83H / America / D / A / A / S23 / Holand / G / B / B
83G / America / D / A / A / S46 / Holand / G / B / B
S42 / Spain / G / B / B / S46-1 / Holand / G / B / B
S75 / Spain / G / B / B / S46-2 / Holand / D / A / B▲
S76 / Spain / G / B / B / S49-1 / Holand / G / B / B
M3 / China / D / A / A / S49-2 / Holand / G / B / B
M12 / China / D / A / A / S51-2 / Holand / G / B / B
Gl / China / D / A / A / S55-1 / Holand / G / B / B
B52 / China / D / A / A / S152-11 / Holand / D / A / B▲
S52 / China / D / B▲ / B▲ / S159-13 / Holand / G / B / B
S57 / China / G / B / B / C17-1 / Holand / G / B / B
S58 / China / G / A▲ / B / C17-2 / Holand / G / B / B
S59-3 / China / G / B / B / S66 / Japan / D / A / A
S60 / China / D / A / A / S67 / Japan / D / A / A
S61-2 / China / D / A / A / S69-2 / Japan / D / A / A
S80 / China / G / B / B / S73-3 / Japan / D / A / A
S82 / China / G / B / B / S74 / Japan / D / A / A
S94 / China / D / A / A / S109-6 / Japan / D / A / A
S103 / China / D / A / A / S118-1 / Japan / D / A / A
S105 / China / D / A / A / L397-1 / Japan / G / B / B
S110 / China / D / A / A / S397-20 / Japan / G / B / B
S122-2 / China / G / B / B / S414 / Japan / G / B / B
S122-16 / China / G / B / B / S03 / Israel / G / B / B
SB-1 / China / D / A / A / S05 / Israel / G / B / B
C19 / France / D / A / B▲ / S06 / Israel / G / B / B
C21 / France / D / A / A / S36 / Israel / G / B / B
H34 / European / G / B / B / S45 / Israel / G / B / B
S34 / European / G / B / B / S45-1 / Israel / G / B / B
S35-1 / European / G / B / B / S45-2 / Israel / G / B / B
S124-5 / European / D / A / A / S47 / Israel / D / A / B▲
S124-6 / European / G / B / B / S48-1 / Israel / G / B / B
S125-5 / European / G / B / B / S48-3 / Israel / G / B / B
S126-2 / European / G / B / B / S53 / Korean / D / A / A
S127-21 / European / G / B / B / S112-7 / Korean / D / A / A

SupplementaryTable S3The 72 cucumber lines examined for the D/d locus using the SSR markers SSR37 and SSR112

D: dull fruit phenotype, G: glossy fruitphenotype. Marker genotype designation: A, dull fruit allele; B,glossy fruit allele.

▲ Disagreement between marker and phenotype.