Table S1 Synteny blocks of MADS-box genes within grape genome

ID / region 1 (Grape) / region 2 (Grape) / gene in the synteny region
Chr / Start / Stop / Chr / Start / Stop / gene 1 / gene 2
113 / chr7 / 15058884 / 16256503 / chr18 / 7338029 / 8296810 / VvMADS18 / VvMADS45
46 / chr17 / 5431008 / 5770494 / chr1 / 109279 / 439652 / VvMADS39 / VvMADS1
52 / chr17 / 1630709 / 5753594 / chr14 / 16192407 / 24018763 / VvMADS38 / VvMADS28
71 / chr18 / 3861742 / 4052933 / chr7 / 17410794 / 17132819 / VvMADS42 / VvMADS19
1 / chr1 / 112285 / 520849 / chr14 / 23285988 / 24129065 / VvMADS2 / VvMADS28
44 / chr16 / 14008044 / 16755347 / chr2 / 4617105 / 3513811 / VvMADS35 / VvMADS8
41 / chr16 / 13450982 / 16162952 / chr15 / 14506625 / 16138896 / VvMADS35 / VvMADS34
42 / chr16 / 14576735 / 14964650 / chr15 / 15872017 / 15399528 / VvMADS36 / VvMADS33
80 / chr2 / 3946577 / 4478285 / chr15 / 15171890 / 15961221 / VvMADS8 / VvMADS34

Table S2 Synteny blocks of incomplete MADS-box genes within grape genome

region 1 (Grape) / region 2 (Grape) / gene in the synteny region
Chr / Start / Stop / Chr / Start / Stop / gene 1 / gene 2
chr1 / 21240516 / 22853689 / chr14 / 24482249 / 25536232 / GSVIVT01010513001 / VvMADS29
chr18 / 10068356 / 12810091 / chr4 / 17429918 / 20390368 / VvMADS46 / GSVIVT01018839001
Chr2 / 236398 / 2725052 / chr15 / 16064252 / 19083025 / VvMADS7 / GSVIVT01027189001

Table S3 Synteny blocks of MADS-box genes between grape and Arabidopsis genomes

ID / region 1 (Ath) / region2 (Grape) / gene in the synteny region
Chr / Start / Stop / Chr / Start / Stop / gene 1 / gene 2
110 / Chr1 / 7485636 / 7950900 / chr18 / 1791337 / 5021751 / AT1G22130 / VvMADS42
97 / Chr1 / 8871568 / 9103603 / chr17 / 3071407 / 5452793 / AT1G26310 / VvMADS38
2 / Chr1 / 10997275 / 11134405 / chr1 / 903666 / 1426536 / AT1G31140 / VvMADS3
94 / Chr1 / 25572185 / 26040720 / chr17 / 3141358 / 5770494 / AT1G69120 / VvMADS38
1 / Chr1 / 25964468 / 26052567 / chr1 / 48574 / 526024 / AT1G69120 / VvMADS2
68 / Chr1 / 25562118 / 26035504 / chr14 / 20027904 / 24018763 / AT1G69120 / VvMADS28
104 / Chr1 / 26050197 / 26527345 / chr17 / 8115895 / 5482657 / AT1G69540 / VvMADS40
131 / Chr1 / 26861657 / 26955127 / chr18 / 28746106 / 27268865 / AT1G71692 / VvMADS48
109 / Chr1 / 28922666 / 29459400 / chr18 / 1791337 / 4737587 / AT1G77950 / VvMADS42
257 / Chr2 / 763011 / 1104230 / chr17 / 6215992 / 8381026 / AT2G03060 / VvMADS40
258 / Chr2 / 1104307 / 1188545 / chr17 / 5753594 / 5160220 / AT2G03710 / VvMADS39
260 / Chr2 / 9513219 / 9946269 / chr18 / 5092140 / 8531571 / AT2G22540 / VvMADS43
287 / Chr2 / 11170418 / 11216647 / chr4 / 1857192 / 1524969 / AT2G26320 / VvMADS17
237 / Chr2 / 17817338 / 17858597 / chr12 / 359834 / 73508 / AT2G42830 / VvMADS24
254 / Chr2 / 18745340 / 18826879 / chr15 / 15945239 / 15233488 / AT2G45650 / VvMADS33
377 / Chr3 / 1492142 / 1771409 / chr14 / 2900489 / 130240 / AT3G05860 / VvMADS26
380 / Chr3 / 11284395 / 12593527 / chr14 / 24215532 / 22557923 / AT3G30260 / VvMADS28
475 / Chr3 / 21199488 / 21428253 / chr8 / 22372711 / 21237910 / AT3G57390 / VvMADS20
349 / Chr3 / 21720773 / 21756641 / chr12 / 553099 / 184543 / AT3G58780 / VvMADS24
385 / Chr3 / 22222105 / 22625716 / chr15 / 9984817 / 15448056 / AT3G61120 / VvMADS33
544 / Chr4 / 7108915 / 7368730 / chr16 / 15221974 / 12003325 / AT4G11880 / VvMADS35
565 / Chr4 / 7024856 / 7401907 / chr2 / 3796865 / 5126116 / AT4G11880 / VvMADS8
500 / Chr4 / 10181334 / 10393893 / chr10 / 1606572 / 3990034 / AT4G18960 / VvMADS21
542 / Chr4 / 11893499 / 12045701 / chr16 / 12003325 / 15613023 / AT4G22950 / VvMADS35
570 / Chr4 / 11839160 / 12225225 / chr2 / 5126116 / 3480175 / AT4G22950 / VvMADS8
553 / Chr4 / 12617256 / 12725637 / chr18 / 6452788 / 5343384 / AT4G24540 / VvMADS43
554 / Chr4 / 17540490 / 17874804 / chr18 / 8237760 / 5846804 / AT4G37940 / VvMADS44
667 / Chr5 / 5100984 / 5161358 / chr14 / 22892368 / 23425220 / AT5G15800 / VvMADS27
628 / Chr5 / 7807183 / 7853961 / chr10 / 14778160 / 12747374 / AT5G23260 / VvMADS23
685 / Chr5 / 20797017 / 21643562 / chr16 / 8000259 / 19401729 / AT5G51860 / VvMADS35
733 / Chr5 / 21081844 / 21211809 / chr2 / 4209047 / 3522059 / AT5G51860 / VvMADS8
705 / Chr5 / 24473319 / 24546269 / chr17 / 5107491 / 5753594 / AT5G60910 / VvMADS38
692 / Chr5 / 24922810 / 25066111 / chr16 / 16174043 / 10048723 / AT5G62165 / VvMADS35

Table S4 The primer sequences used for RT-PCR amplification of grape MADS-box genes

Gene ID / Forward primer (5'->3') / Reverse primer (5'->3') / product length(bp) /
VvMADS1 / AAGAAGCAGAAGCGGAAGAATAAC / CGCAACCTCAGCATCACACA / 165
VvMADS2 / TTGGAAACTACAAGGAAACCCC / ACCGAAAACAGCGGAGAAAAT / 141
VvMADS3 / CCCTGAACTTTCTGTGCTTTGTG / TGTGTGTCTCATTCCTCATCCTTG / 206
VvMADS4 / CGCCGCTAAAATAAAGAATGAGAG / CGATACAAGGGTGACCAAATGAAT / 167
VvMADS5 / GGGAGATGACTAAAATGGCAAAAG / GGGTGTAAGAGGATTCCGTGTAA / 215
VvMADS6 / GGCTTCTGAGGATGGGAGTG / CCCGAATGAAGAAAAGAACAAAAGG / 161
VvMADS7 / GACGATTTGTTACAGTCCCCTCA / GTATCTGCTTCGCCCAGTTCTT / 232
VvMADS8 / CCGTCAAAGAGGAGGAGTGG / GCTAGGCCCTTGGCTTTACTT / 170
VvMADS9 / AGGTTGAGATGACCAAAATGACGA / CGAGGAGAGAAGACTATTATGGCTGT / 139
VvMADS10 / ACGCCCTTTGCCCAACTCTA / CCTTTCCAGCGACACCTTCAG / 235
VvMADS11 / TGAGGAAAAGTAAGGGTCGCC / GCACCAGAGTGGGGTAAAGG / 250
VvMADS12 / TCAGGTGTTCTCCTTTGGGC / GGTTTGGCTTGCTCTTCTCATTT / 220
VvMADS13 / CGCTACATCGTCTATTCGTTCTT / TCTTTTCTCGGCTTCTAGTTGGT / 150
VvMADS14 / TTCGGTACATCGTCTATTCGTTCTT / CCTTTTCTCGGCTTCTAGTTGGT / 152
VvMADS15 / AGAAAGGCACAGTCAGCATCC / CGCACAGACCAGCTTCAAGTA / 209
VvMADS16 / GAAAGGCACAATCAGCATCCAC / GGCACAGACCAGCTTCAAGTA / 208
VvMADS17 / GCAGAGAGGCAAGCGAAGTATT / CCGATGACCGTAAGCAGATTTT / 164
VvMADS18 / GAATAAAGCGGTTCGGCAAGT / TGGAAAACGCGAGCAAGG / 112
VvMADS19 / ACGATTTGAGCCTGACCCACT / CGGCAACCAGCCCATAACC / 217
VvMADS20 / TCATCATCTTCTCCAGCACAGG / TTCCCCATCATTCGCAGGTAA / 223
VvMADS21 / TGGTGGGGAGATTAGTGTAAAGTG / TTGCTGGCTGGTGAGGAAAC / 208
VvMADS22 / GTTGGAAGGCTGGAGGTGAAG / CGGGAACCCCTGAACTGCT / 128
VvMADS23 / CCGTGAACTTTCTGTGCTTTGTG / AGTGGTTTCTTTTCTCATCCTCGT / 205
VvMADS24 / CGTCTCATCGTCTTCTCCAGC / CCACTCAGAAACAGATCCGGTAT / 126
VvMADS25 / CGTTAGATTCATCAGAGGGTGC / GCTGTCTCGTTTGTAGCTTTCG / 105
VvMADS26 / GGCTCTTGGGTGGATGATTG / TGGTTTCTCCTCCTGTGCTTTC / 154
VvMADS27 / GCTCAGTCTCAGGGGTTCTT / GACATTTTGGGCATTACTCGGA / 111
VvMADS28 / ACCAGGGAGAAAAGAAAGGAGC / AGCATCGCACAGCACAGAAA / 149
VvMADS29 / GGCACCCTGAATCTCCTACATAAC / CCTTCCGCTTCGTCGCTTT / 149
VvMADS30 / TCGGAAGCAACATAGAAAGGGT / CCGCTATCTCGGCATCACAC / 173
VvMADS31 / CCGTTAAGAAAGCACAGGAGC / GCGTGTATAAAAAGAAGGAATGGG / 142
VvMADS32 / CAGGGAAACCAGAACCACCAT / GGCACAGACCAGCTTCAAGTA / 180
VvMADS33 / ATCACCTCATTTTCCAGTCCTCC / GACAGCAACCTCAGCATCACAA / 231
VvMADS34 / GCTCTCCGTGCTCTGTGATG / GGGATGTTATGTTCGGTAGTCTTG / 165
VvMADS35 / CCCCTGAAGAAGGCGTATGAG / GGGTATCGTTCTATCGCACTTTG / 128
VvMADS36 / CCAAGTCACCTTCTCCAAACG / ACAATCTTCGGTATCGCTCAATG / 167
VvMADS37 / CGGCAAGGCTTACCAGTTC / CTGTTTTGCTTCCAAGGTGTCTA / 175
VvMADS38 / GCCTACACCCCTTCCTGCT / TCCATTTGGGCCTTCTGACTAT / 242
VvMADS39 / ACCTTAGATACCCACCACCCA / AGCAAATGTCACCTGCCTGTTA / 246
VvMADS40 / TCCAAAGCACCAACTTATGTCTC / CCCAGCACTCCATATCCCTC / 185
VvMADS41 / GTTCCTTCTGCTGCGATACAAA / CCTGAAAAGCCCTCGTCTCC / 145
VvMADS42 / GGAATAGAAGATAAAGCAACTCGGC / CGTTCAAATGCAAACTGGACAAG / 245
VvMADS43 / GTTCCTTCTGCTGCGATACAAA / CCTGAAAAGCCCTCGTCTCC / 145
VvMADS44 / CGATGCCGAAGTAGGAGTGATA / AGGTGTTCCTCTTTTGCTTTGAT / 114
VvMADS45 / ATCTTACCGCCATCTTCAACCC / CGGCAGGATAGGAGCCATTC / 187
VvMADS46 / GATAGTGGACAATGGAGGGGA / CAAAGTAAAGGTCAAATCAGAGCC / 139
VvMADS47 / AAGCTGAAGTCGCCGGATT / CCTGACGGTTGGTCGTGTTT / 95
VvMADS48 / CGTAGCCACCAAAGGAACCAT / CAGCCCCACCTCCCAACATA / 182
VvMADS49 / GGGTCGAAAGATTGAAATGAGG / CCCCCAGATGGTGAATAGGTAAG / 142
VvMADS50/51 / AAATGAGTTTGCGAGGTGTCC / GTTCTCTTGGCGAATAAGGGTC / 140
VvMADS52 / GGAGAACGAGCGATTAAGACAA / GGACCCGTCAACCAGAGTAT / 206
VvMADS53 / GTCGGTCGAGGCGGTAATA / CGCTCACGCAGATTGTCAGT / 93
VvMADS54 / CCGTTAAGAAAGCACAGGAGC / GCGTGTATAAAAAGAAGGAATGGG / 142

Table S5 Name information of Arabidopsis MADS-box genes mentioned in the text and figures

Atg code / Abbreviated names / Atg code / Abbreviated names
AT1G01530 / AGL28 / AT3G58780 / SHP1 (AGL1)
AT1G22130 / AGL104 / AT3G61120 / AGL13
AT1G22590 / AGL87 / AT4G09960 / STK (AGL11)
AT1G24260 / SEP3 (AGL9) / AT4G11880 / AGL14
AT1G26310 / CAL (AGL10) / AT4G18960 / AG
AT1G31140 / AGL63 / AT4G22950 / AGL19
AT1G60880 / AGL56 / AT4G24540 / AGL24
AT1G69120 / AP1 (AGL7) / AT4G36590 / AGL40
AT1G69540 / AGL94 / AT4G37940 / AGL21
AT1G71692 / AGL12 / AT5G04640 / AGL99
AT1G77080 / AGL27 / AT5G06500 / AGL96
AT1G77950 / AGL67 / AT5G10140 / FLC
AT2G03060 / AGL30 / AT5G13790 / AGL15
AT2G03710 / AGL3 / AT5G15800 / SEP1 (AGL2)
AT2G14210 / ANR1 (AGL44) / AT5G20240 / PI
AT2G22540 / SVP (AGL42) / AT5G27580 / AGL89
AT2G24840 / AGL61 / AT5G38620 / AGL73
AT2G28700 / AGL46 / AT5G38740 / AGL77
AT2G42830 / SHP2 (AGL5) / AT5G40120 / AGL76
AT2G45650 / AGL6 / AT5G48670 / AGL80
AT2G45660 / SOC1 (AGL20) / AT5G55690 / AGL47
AT3G02310 / SEP2 (AGL4) / AT5G58890 / AGL82
AT3G04100 / AGL57 / AT5G60440 / AGL62
AT3G18650 / AGL103 / AT5G60910 / FUL (AGL8)
AT3G54340 / AP3 / AT5G65050 / AGL31
AT3G57230 / AGL16 / AT5G65330 / AGL78
AT3G57390 / AGL18