MADS Genomic sequences MADS Phylogeny file MADS Phylogeny file with bootstrap MADS Phylogeny JPEG MADS Phylogeny PDF

Minimum number of tobacco MADS Box genes: 119

Count of tobacco MADS Box sequences: 122

Pfam accession: SRF-TF

SHOULD possess SRF-TF domain and COULD possess K-box domain

Members of the MADS box family are known to be predominately involved in developmental processes and are found in animal as well as plant species. In plants, the gene family has greatly expanded and this appears to have been instrumental in shaping the evolution of the true flower around 120-150 million years ago . As with other families of transcription factors, these genes share a common DNA binding domain, in this case the MADS box domain. MADS box factors bind to the CArG box (CC(A/T)6GG) that shows dyad symmetry . MADS box proteins form multimeric protein complexes that interact with promoter sequences on their target genes. Many of these interactions are between MADS box genes but interactions also occur with other types of protein . The first two MADS box genes to be discovered in plants were DEFICIENS (DEF) from Antirrhinum majus and AGAMOUS (AG) from Arabidopsis and work on MADS box genes and floral organ formation has led to the ABCDE model that explains how transcription factors acting alone or in combination can lead to the formation of floral organs. All of these transcription factors except APETELA2 are MADS box genes.

Phylogenetic analysis of MADS box genes from fungi, animals and plants, suggests that there are two main lineages, type I and type II, caused by a gene duplication that occurred before the divergence of plants and animals . The complete Arabidopsis gene family demonstrates that MADS box genes can be further divided into five subgroups (MIKC, M, M, M, and M) based on phylogenetic relationships of the MADS box domain . Most known MADS box mutants are found in the MIKC group which together with M make up the type II genes.

Papers

Parenicova L, de Folter S, Kieffer M, Horner DS, Favalli C, Busscher J, Cook HE, Ingram RM, Kater MM, Davies B, Angenent GC, Colombo L. Molecular and phylogenetic analyses of the complete MADS-box transcription factor family in Arabidopsis: new openings to the MADS world. Plant Cell. 2003 Jul;15(7):1538-51. PMID: 12837945

Nam J, dePamphilis CW, Ma H, Nei M. Antiquity and evolution of the MADS-box gene family controlling flower development in plants. Mol Biol Evol. 2003 Sep;20(9):1435-47. Epub 2003 May 30. PMID: 12777513

Ng, M; Yanofsky, MF. Function and evolution of the plant MADS-box gene family. Nat. Rev. Genet. 2001 2(3):186-95 PMID: 11256070

Riechmann, JL; Meyerowitz, EM. MADS domain proteins in plant development. Biol. Chem. 1997. 378(10):1079-101 PMID: 9372178



Number of contigs: 115

Number of singlets: 7

Number of N terminal – 0

Number of C terminal – 9

Number of full – 107

Number of published (present in GSS but lacking MADS domain) – 3

Total minimum number – 119




Search sequences and info


Transcription factor sequences
Locus
Description
NCBI
MADS_1 [alias=MADS-box_1] ET051675
MADS_2 [alias=MADS-box_2] ET048093
MADS_3 [alias=MADS-box_3] ET043388
MADS_4 [alias=MADS-box_4] ET051889
MADS_5 [alias=MADS-box_5] ET042889
MADS_6 [alias=MADS-box_6] ET046368
MADS_7 [alias=MADS-box_7] ET043577
MADS_8 [alias=MADS-box_8] ET048614
ET048452
MADS_9 [alias=MADS-box_9] ET049075
ET045051
MADS_10 [alias=MADS-box_10] ET048902
ET043247
MADS_11 [alias=MADS-box_11] ET051143
ET050570
MADS_12 [alias=MADS-box_12] ET047899
ET047900
MADS_13 [alias=MADS-box_13] ET045665
ET045049
MADS_14 [alias=MADS-box_14] ET048904
ET045186
MADS_15 [alias=MADS-box_15] ET043787
ET044964
MADS_16 [alias=MADS-box_16] ET048886
ET043492
MADS_17 [alias=MADS-box_17] ET042198
ET048033
MADS_18 [alias=MADS-box_18] ET051788
ET047908
MADS_19 [alias=MADS-box_19] ET043725
ET051363
MADS_20 [alias=MADS-box_20] ET043116
ET046416
MADS_21 [alias=MADS-box_21] ET047376
ET047969
MADS_22 [alias=MADS-box_22] ET050126
ET050843
MADS_23 [alias=MADS-box_23] ET044240
ET047082
MADS_24 [alias=MADS-box_24] ET047181
ET047180
MADS_25 [alias=MADS-box_25] ET048307
ET047003
MADS_26 [alias=MADS-box_26] ET049942
ET047760
MADS_27 [alias=MADS-box_27] ET050075
ET048528
MADS_28 [alias=MADS-box_28] ET042980
ET042979
MADS_29 [alias=MADS-box_29] ET044487
ET044156
MADS_30 [alias=MADS-box_30] ET042216
ET050061
MADS_31 [alias=MADS-box_31] ET049201
ET051724
MADS_32 [alias=MADS-box_32] ET044023
ET045407
MADS_33 [alias=MADS-box_33] ET051826
ET050244
MADS_34 [alias=MADS-box_34] ET043037
ET043038
MADS_35 [alias=MADS-box_35] ET042683
ET043007
MADS_36 [alias=MADS-box_36] ET047188
ET049683
MADS_37 [alias=MADS-box_37] ET051109
ET051410
MADS_38 [alias=MADS-box_38] ET051316
ET042115
MADS_39 [alias=MADS-box_39] ET044597
ET051672
MADS_40 [alias=MADS-box_40] ET048087
ET050885
MADS_41 [alias=MADS-box_41] ET047220
ET048664
MADS_42 [alias=MADS-box_42] ET043953
ET046304
MADS_43 [alias=MADS-box_43] ET047965
ET048995
MADS_44 [alias=MADS-box_44] ET045700
ET042905
MADS_45 [alias=MADS-box_45] ET042469
ET051661
MADS_46 [alias=MADS-box_46] ET047209
ET042691
MADS_47 [alias=MADS-box_47] ET048761
ET051619
MADS_48 [alias=MADS-box_48] ET042405
ET042073
MADS_49 [alias=MADS-box_49] ET050357
ET050865
ET050866
MADS_50 [alias=MADS-box_50] ET045267
ET045268
ET050773
MADS_51 [alias=MADS-box_51] ET047887
ET044423
ET047886
MADS_52 [alias=MADS-box_52] ET042923
ET041952
ET042922
MADS_53 [alias=MADS-box_53] ET047989
ET042149
ET043440
MADS_54 [alias=MADS-box_54] ET051604
ET046261
ET046157
MADS_55 [alias=MADS-box_55] ET049457
ET045148
ET042654
MADS_56 [alias=MADS-box_56] ET047324
ET048156
ET047907
MADS_57 [alias=MADS-box_57] ET047022
ET047146
ET047023
MADS_58 [alias=MADS-box_58] ET042454
ET049330
ET045904
MADS_59 [alias=MADS-box_59] ET044092
ET044139
ET044093
MADS_60 [alias=MADS-box_60] ET045276
ET044926
ET045595
MADS_61 [alias=MADS-box_61] ET041923
ET049758
ET041872
MADS_62 [alias=MADS-box_62] ET048682
ET043269
ET048681
MADS_63 [alias=MADS-box_63] ET051494
ET049790
ET045354
MADS_64 [alias=MADS-box_64] ET045459
ET048607
ET051897
MADS_65 [alias=MADS-box_65] ET043259
ET049018
ET050102
MADS_66 [alias=MADS-box_66] ET045403
ET045473
ET045915
MADS_67 [alias=MADS-box_67] ET049340
ET046453
ET044577
MADS_68 [alias=MADS-box_68] ET045484
ET042338
ET047228
MADS_69 [alias=MADS-box_69] ET042890
ET050009
ET043331
MADS_70 [alias=MADS-box_70] ET049179
ET042415
ET042821
MADS_71 [alias=MADS-box_71] ET042441
ET042442
ET042437
MADS_72 [alias=MADS-box_72] ET046596
ET043809
ET046597
MADS_73 [alias=MADS-box_73] ET045235
ET046946
ET044138
MADS_74 [alias=MADS-box_74] ET047117
ET050592
ET046023
MADS_75 [alias=MADS-box_75] ET048907
ET049801
ET047184
MADS_76 [alias=MADS-box_76] ET042519
ET048492
ET047145
MADS_77 [alias=MADS-box_77] ET050111
ET050113
ET048862
MADS_78 [alias=MADS-box_78] ET042377
ET050622
ET046837
ET048102
MADS_79 [alias=MADS-box_79] ET048895
ET049666
ET042631
ET043169
MADS_80 [alias=MADS-box_80] ET050081
ET046224
ET042382
ET042411
MADS_81 [alias=MADS-box_81] ET051404
ET051607
ET041763
ET048785
MADS_82 [alias=MADS-box_82] ET049241
ET042429
ET048196
ET051673
MADS_83 [alias=MADS-box_83] ET048193
ET050210
ET044381
ET046854
MADS_84 [alias=MADS-box_84] ET046591
ET047102
ET048083
ET048538
MADS_85 [alias=MADS-box_85] ET045534
ET048159
ET045533
ET047237
MADS_86 [alias=MADS-box_86] ET042788
ET049092
ET042940
ET042787
MADS_87 [alias=MADS-box_87] ET048466
ET051760
ET051562
ET043940
MADS_88 [alias=MADS-box_88] ET044347
ET047601
ET047602
ET044346
MADS_89 [alias=MADS-box_89] ET044954
ET042632
ET043308
ET043302
MADS_90 [alias=MADS-box_90] ET046956
ET046955
ET045956
ET045957
MADS_91 [alias=MADS-box_91] ET050519
ET050518
ET050520
ET050521
MADS_92 [alias=MADS-box_92] ET051436
ET043967
ET042118
ET044399
MADS_93 [alias=MADS-box_93] ET051566
ET042564
ET042563
ET048000
MADS_94 [alias=MADS-box_94] ET044748
ET042379
ET042380
ET048413
MADS_95 [alias=MADS-box_95] ET047176
ET043423
ET047177
ET042891
MADS_96 [alias=MADS-box_96] ET042957
ET046229
ET046230
ET042585
MADS_97 [alias=MADS-box_97] ET049452
ET044783
ET044330
ET049407
MADS_98 [alias=MADS-box_98] ET045146
ET046918
ET046637
ET047071
MADS_99 [alias=MADS-box_99] ET049605
ET048208
ET048760
ET048759
MADS_100 [alias=MADS-box_100] ET043945
ET044251
ET042398
ET042397
ET047944
MADS_101 [alias=MADS-box_101] ET043195
ET046622
ET048478
ET046621
ET043194
MADS_102 [alias=MADS-box_102] ET044567
ET042335
ET042334
ET042336
ET051398
MADS_103 [alias=MADS-box_103] ET046696
ET046697
ET050513
ET047699
ET050616
MADS_104 [alias=MADS-box_104] ET046806
ET046807
ET046969
ET049231
ET046252
MADS_105 [alias=MADS-box_105] ET044939
ET048188
ET048273
ET046293
ET042897
MADS_106 [alias=MADS-box_106] ET043021
ET049981
ET046882
ET048498
ET046883
MADS_107 [alias=MADS-box_107] ET042202
ET049218
ET044293
ET042201
ET049550
MADS_108 [alias=MADS-box_108] ET051176
ET051177
ET042853
ET042852
ET046625
MADS_109 [alias=MADS-box_109] ET048521
ET045849
ET042618
ET047094
ET047095
MADS_110 [alias=MADS-box_110] ET051405
ET048807
ET050564
ET042331
ET045460
MADS_111 [alias=MADS-box_111] ET042315
ET047786
ET042314
ET051383
ET045251
MADS_112 [alias=MADS-box_112] ET046795
ET043003
ET042341
ET046794
ET047198
ET049990
MADS_113 [alias=MADS-box_113] ET048209
ET049306
ET047577
ET045283
ET048915
ET047219
MADS_114 [alias=MADS-box_114] ET050107
ET042592
ET051536
ET051535
ET044812
ET043279
ET046886
MADS_115 [alias=MADS-box_115] ET043174
ET046976
ET050783
ET046200
ET046798
ET050632
ET045408
ET046174
MADS_116 [alias=MADS-box_116] ET044890
MADS_117 [alias=MADS-box_117] ET045906
MADS_118 [alias=MADS-box_118] ET049246
MADS_119 [alias=MADS-box_119] ET042412
MADS_120 [alias=MADS-box_120] ET043723
MADS_121 [alias=MADS-box_121] ET049380
MADS_122 [alias=MADS-box_122] ET042625


Tobacco published genes related to transcription factor family MADS
Family Genbank ID Name
MADS DQ534202 FUL
MADS X96428 MADS-box
MADS X76188 tobmads1
MADS X67959 NTGLOBOSA
MADS AY183721 Mads1;11
MADS AF385746 MADS11
MADS AF068723 NtMADS4
MADS AF068724 NtMADS5
MADS AF009127 NAP1-2
MADS AF009126 NAP1-1
MADS TOBNAG1A NAG1
Authors of this site:

Paul J Rushton
Marta T. Bokowiec
Xianfeng (Jeff) Chen
Thomas (Tom) W Laudeman
Jennifer F. Brannock
Michael P. Timko

Contact:

pr8y@virginia.edu