Table 3 |
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Putative phenylpropanoid/flavonoid gene sets upregulated more than 2-fold in the seed coats of black (iRT) soybean compared to the brown (irT) isolinea,b. |
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SAM |
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Gene Family |
Probe Sets |
Name |
Target Description |
Black/brown fold change |
P-value |
d-score |
|
|
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|
Phenyl-propanoid/Flavonoid pathway |
GmaAffx.80720.1.S1_at |
DFR2* |
Dihydroflavonol-4-reductase |
62.45 |
0.000002 |
24.70 |
|
GmaAffx.42116.1.S1_at |
CHS4*/CHS5* |
Chalcone synthase (LOC732575) |
10.99 |
0.000020 |
8.45 |
|
|
GmaAffx.42116.1.S1_x_at |
8.06 |
0.000026 |
7.124398 |
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Gma.1163.1.S1_at |
ANS2*/ANS3* |
Anthocyanidin synthase |
6.77 |
0.000018 |
8.77 |
|
|
Gma.17141.1.S1_at |
F3H-like |
Moderately similar to A. thaliana putative flavonone 3-β-hydroxylase clone U20744 (74%) |
6.43 |
0.004849 |
2.03 |
|
|
Gma.7423.2.S1_a_at |
4CL-like |
4-coumarate-CoA ligase-like protein |
2.80 |
0.005815 |
1.96 |
|
|
Gma.5621.1.S1_at |
G4DT* |
Pterocarpan 4-dimethylallyltransferase |
2.36 |
0.009232 |
1.80 |
|
|
Gma.8472.1.S1_at |
4CL2* |
4-Coumarate-CoA ligase 2 |
2.27 |
0.000108 |
4.60 |
|
|
Glycosyl-transferase |
GmaAffx.71999.1.S1_at |
UGT78K2 |
Glycosyltransferase |
3.09 |
0.000124 |
4.50 |
|
Gma.1002.2.S1_at |
UGT78K1* |
UDP-glucose:flavonoid 3-O-glucosyltransferase |
2.81 |
0.000229 |
4.03 |
|
|
O-methyl-transferase |
Gma.9647.1.S1_at |
OMT-like |
O-methyltransferase, putative |
2.58 |
0.000098 |
4.74 |
|
GmaAffx.57777.1.S1_at |
OMT5 |
Caffeoyl-CoA O-methyltransferase 5 |
2.48 |
0.000157 |
4.33 |
|
|
Glutathione S-transferase |
GmaAffx.71212.1.A1_at |
GST26 |
Glutathione S-transferase |
234.11 |
0.000003 |
21.22 |
|
Gma.5139.1.S1_at |
GST21 |
Glutathione S-transferase |
2.05 |
0.000656 |
3.09 |
|
|
|
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aExpression values were obtained using RMA (Irizarry et al., 2003). bSee Table S2 for the complete list of upregulated genes. *Previously characterized flavonoid biosynthesis genes. |
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Kovinich et al. BMC Genomics 2011 12:381 doi:10.1186/1471-2164-12-381 |
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