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Table 2 Annotation and expression of unigenes showing the homology with R2R3-MYB, R3-MYB, and MYB3R genes

From: RNA-seq-based evaluation of bicolor tepal pigmentation in Asiatic hybrid lilies (Lilium spp.)

Type and sub-group (SG)a) Trinity transcript id Homologous gene in Lilium Homologous gene in Arabidopsis Homologous gene in other species Blastp top hit Length Identity E-value FPKM (expression) in logFC logCPM FDR
Upper tepals Tepal bases
MYB3R type
  c19823_g1   AtMYB3R-1   myb-related protein 3R-1-like isoform X2 [Phoenix dactylifera] 242 74 % 2E-115 4.24 7.13 −0.61 1.90 1
  c27498_g5   AtMYB3R-3,3R-5   myb-related protein 3R-1-like [Musa acuminata subsp. malaccensis] 502 50 % 7E-154 10.74 11.67 −0.11 4.65 1
R2R3-MYB type
 SG 1 c10428_g1   AtMYB30,94,96 Am306 R2R3-MYB transcriptional factor, partial [Lilium hybrid division I] 124 75 % 2E-42 2.96 2.18 0.30 −0.14 1
 SG 1 c19652_g1 LhMYB7 AtMYB30,94,96 Am306 R2R3-MYB transcriptional factor, partial [Lilium hybrid division I] 193 99 % 2E-112 6.94 3.00 1.20 1.56 0.5056056
 SG 1 c19652_g2 LhMYB7 AtMYB30,94,96 Am306 R2R3-MYB transcriptional factor, partial [Lilium hybrid division I] 109 100 % 1E-63 1.72 5.00 −1.19 0.26 0.9933287
 SG 1 c23337_g2 LhMYB5 AtMYB30,94,96 Am306 R2R3-MYB transcriptional factor, partial [Lilium hybrid division I] 309 98 % 6E-141 7.72 14.20 −0.85 3.12 0.5775627
 SG 2 c2281_g1   AtMYB13,14,15   putative MYB transcription factor [Rosa rugosa] 89 83 % 3E-48 10.39 7.12 0.65 1.35 1
 SG 2 c8990_g1   AtMYB13,14,15   myb-like protein Myb15 [Citrus maxima] 83 83 % 8E-47 1.73 8.46 −2.10 −0.42 0.9933287
 SG 2 c12438_g1   AtMYB13,14,15   myb-related protein Zm1-like [Elaeis guineensis] 259 51 % 1E-64 14.05 12.72 3.19 2.36 0.004292067
 SG 2 c18397_g1   AtMYB13,14,15   Myb-related protein Zm1 [Aegilops tauschii] 206 51 % 1E-43 4.60 4.21 0.21 1.28 1
 SG 2 c18397_g2   AtMYB13,14,15   myb-related protein Myb4-like [Brachypodium distachyon] 43 72 % 2E-14 5.15 1.96 1.99 0.35 0.4220982
 SG 2 c35333_g1   AtMYB13,14,15   MYB transcription factor [Zea mays] 121 87 % 3E-62 1.58 4.09 −1.24 −0.07 1
 SG 2 c36958_g1   AtMYB13,14,15   myb-related protein Myb4 [Zea mays] 98 69 % 7E-35 1.81 1.79 −0.05 −0.66 1
 SG 4 c10735_g1 LhMYB3 AtMYB3,4,7,32 FaMYB1, Am308, Am330 R2R3-MYB transcriptional factor [Lilium hybrid division I] 119 97 % 5E-81 5.83 3.37 0.91 1.16 1
 SG 4 c25442_g1 LhMYB8 AtMYB3,4,7,32 FaMYB1, Am308, Am330 R2R3-MYB transcriptional factor [Lilium hybrid division I] 214 99 % 2E-156 273.93 218.16 0.31 7.76 1
 SG 4 c25442_g2   AtMYB3,4,7,32 FaMYB1, Am308, Am330 myb-related protein 308-like [Elaeis guineensis] 252 69 % 1E-119 72.64 61.13 0.25 6.28 1
 SG 6 c22900_g1 LhMYB12 PAP1,PAP2 PhAN2 transcription factor R2R3-MYB [Lilium hybrid division I] 162 95 % 6E-97 276.37 216.83 0.30 7.89 1
 SG 6 c24386_g1 LrMYB15 PAP1,PAP2 PhAN2 transcription factor R2R3-MYB [Lilium regale] 242 88 % 4E-155 7.23 15.11 −1.05 3.20 0.3424106
 SG 6 c24386_g2 LhMYB16 PAP1,PAP2 PhAN2 R2R3-MYB transcriptional factor, partial [Lilium hybrid division I] 240 84 % 5E-75 5.47 8.71 −0.69 2.32 0.9933287
 SG 7 c25442_g3   AtMYB11,12,111 ZmP MYB12 [Arabidopsis thaliana] 287 70 % 1E-72 30.92 11.36 1.49 3.84 0.3424106
 SG 9 c10215_g1   AtMYB17 AmMIXTA Myb domain protein 17 isoform 2 [Theobroma cacao] 72 66 % 1E-19 0.00 4.63 −3.28 −0.92 1
 SG 9 c10215_g2   AtMYB17 AmMIXTA myb domain protein 17 [Zostera marina] 80 91 % 2E-46 n.d. n.d. n.d. n.d. n.d.
 SG 9 c22634_g1 LhMYB10 AtMYB17 AmMIXTA R2R3-MYB transcriptional factor, partial [Lilium hybrid division I] 245 98 % 1E-143 7.57 11.78 −0.62 2.96 0.9933287
 SG 9 c22634_g2   AtMYB17 AmMIXTA Transcription factor [Morus notabilis] 107 99 % 5E-72 13.11 16.98 −0.29 2.07 1
 SG 13 c4482_g2   AtMYB55,86   putative transcription factor MYB55 [Arabidopsis thaliana] 105 96 % 3E-62 2.67 1.34 0.69 −0.51 1
 SG 13 c16280_g2   AtMYB55,86   MYB transcription factor MYB89 [Glycine max] 107 48 % 6E-25 2.58 4.98 −0.64 0.04 1
 SG 13 c35026_g1   AtMYB55,86   transcription factor MYB34-like [Nicotiana tomentosiformis] 86 90 % 2E-50 2.17 1.79 0.42 −0.55 1
 SG 18 c19459_g1   AtMYB65,101 HvGAMYB transcription factor GAMYB [Vitis vinifera] 480 43 % 7E-119 5.55 4.82 0.16 2.80 1
 SG 18 c32967_g1   AtMYB65,101 HvGAMYB transcription factor GAMYB-like [Musa acuminata subsp. malaccensis] 115 67 % 2E-49 2.44 2.07 0.41 0.41 1
 SG 19 c7757_g1 LhMYB2 AtMYB21,24 Am305, Am340, PhEOBII R2R3-MYB transcriptional factor [Lilium hybrid division I] 191 100 % 4E-142 2609.05 2336.57 0.16 11.12 1
 SG 19 c23501_g1 LhMYB1 AtMYB21,24 Am305, Am340, PhEOBII LhMyb [Lilium hybrid division I] 192 99 % 5E-131 2929.08 2745.59 0.09 11.22 1
 SG 21 c7270_g1   AtMYB105,117 MlRCP1 myb-like protein Q [Musa acuminata subsp. malaccensis] 156 52 % 3E-18 3.36 0.32 3.04 0.02 0.3424106
 SG 21 c16635_g1   AtMYB105,117 MlRCP1 MYB143 protein [Gossypium hirsutum] 73 70 % 0.0000004 20.94 0.95 4.16 2.15 0.00079
 SG 22 c12801_g2   AtMYB44, 70, 73, 77   transcription factor MYB44-like [Vitis vinifera] 410 51 % 2E-100 23.84 29.80 −0.29 5.21 1
 SG 22 c13168_g1   AtMYB44, 70, 73, 77   MYB transcription factor MYB178 [Glycine max] 75 78 % 3E-24 0.00 3.69 −3.20 −0.93 1
 SG 22 c21029_g1   AtMYB44, 70, 73, 77   sucrose responsive element-binding protein [Elaeis guineensis] 205 61 % 7E-72 5.17 13.50 −1.35 2.23 0.3424106
 SG 22 c21511_g2   AtMYB44, 70, 73, 77   Myb domain protein 73 [Theobroma cacao] 222 59 % 4E-55 62.90 87.74 −0.45 5.24 0.9953253
 SG 22 c37985_g1   AtMYB44, 70, 73, 77   transcription factor MYB44-like [Musa acuminata subsp. malaccensis] 92 53 % 5E-24 0.73 1.16 −0.13 −0.93 1
 SG 23 c1544_g1   AtMYB1   myb-related protein B-like [Gossypium raimondii] 135 65 % 3E-50 2.32 3.46 −0.30 0.18 1
 SG 23 c26297_g1   AtMYB1   transcription factor MYB86 [Cucumis sativus] 331 57 % 5E-116 14.64 13.84 0.06 3.86 1
 SG 25 c14426_g1   AtMYB98   transcription factor MYB98-like [Prunus mume] 77 61 % 1E-23 9.25 1.90 2.24 −0.35 0.7101734
  c14549_g1   AtMYB20, 85 PhODO1 protein ODORANT1 [Sesamum indicum] 125 54 % 4E-36 4.46 4.21 −0.01 0.35 1
  c14549_g2   AtMYB20, 85 PhODO1 myb-related protein 315-like [Nicotiana tomentosiformis] 67 88 % 4E-40 0.00 7.78 −4.67 −0.44 0.3424106
  c16655_g1   AtMYB20, 85 PhODO1 protein ODORANT1-like [Elaeis guineensis] 263 64 % 6E-118 3.83 5.67 −0.47 1.75 1
  c28204_g2   AtMYB88,124   Myb124, putative isoform 1 [Theobroma cacao] 509 45 % 3E-119 6.92 9.76 −0.19 3.60 1
  c24798_g1   AtMYB91/AS1 AmMYBPHAN transcription factor AS1 [Populus euphratica] 345 69 % 3E-165 10.58 7.27 0.52 3.44 0.9933287
R3-MYB type
  c24227_g1   AtMYBL2   transcription repressor MYB4-like [Nelumbo nucifera] 157 42 % 3E-37 4.82 3.86 0.41 0.79 1
  c24227_g2   AtMYBL2   myb-related protein 308-like [Phoenix dactylifera] 157 43 % 3E-34 28.20 3.00 3.29 2.42 0.00079
  c18278_g2   AtCAPRICE PhMYBx transcription factor CPC-like [Nelumbo nucifera] 90 62 % 6E-23 5.87 4.64 0.28 −0.13 1
'Unusual' MYB genes with two or more repeats
  c28856_g1   AtCDC5   cell division cycle 5-like protein [Arabidopsis thaliana] 1049 73 % 0 12.74 13.64 −0.06 5.40 1
  c23757_g4   AtMYB4R1   myb-like protein L [Phoenix dactylifera] 197 74 % 3E-98 6.93 5.83 −0.20 1.21 1
  1. a)The grouping follows [51]