Table 1.
Soybean phenylpropanoid pathway genes responsive to infection by Pseudomonas syringae with (HR) or without (VIR) avrB
| Ratio treatment vs MgCl2 controla | |||||||||
| Gene Description | 3'-Clone ID | 5'-Clone ID | 5' or 3' TIGR TC | T2HR | T8HR | T24HR | T2VIR | T8VIR | T24VIR |
| Phenylalanine ammonia-lyase (PAL) | Gm-r1088-2170 | Gm-c1027-2831 | TC225162 | 2.46 | 1.93 | ||||
| Phenylalanine ammonia-lyase (PAL) | Gm-r1070-3081 | Gm-c1015-4781 | TC216854 | 6.23 | 3.81 | 2.07 | |||
| Phenylalanine ammonia-lyase (PAL) | Gm-r1021-3996 | Gm-c1004-9203 | TC225162 | 2.44 | 2.26 | 1.05 | 1.68 | ||
| Phenylalanine ammonia-lyase (PAL) | Gm-b10BB-2 | Gm-c1062-1285 | TC225162 | 3.39 | 2.80 | 2.67 | 2.19 | ||
| Phenylalanine ammonia-lyase (PAL) | Gm-r1083-3853 | Gm-c1028-6208 | TC225168 | 3.39 | 2.62 | ||||
| Phenylalanine ammonia-lyase (PAL) | Gm-r1070-4771 | Gm-c1016-5168 | NA | 3.18 | 3.14 | ||||
| Cinnamate 4 hydroxylase (C4H) | Gm-r1021-162 | Gm-c1004-446 | TC204339 | 4.76 | 1.67 | 2.25 | |||
| Cinnamate 4 hydroxylase (C4H) | Gm-r1021-1649 | Gm-c1004-3560 | TC204341 | 1.97 | |||||
| Cinnamate 4 hydroxylase (C4H) | Gm-r1021-3590 | Gm-c1004-8721 | TC204341 | 2.58 | 1.59 | 1.25 | 1.89 | ||
| Cinnamate 4 hydroxylase (C4H) | Gm-r1083-1942 | Gm-c1028-893 | TC204341 | 3.43 | 1.93 | ||||
| 4-coumarate:CoA ligase (4CL) | Gm-r1021-2611 | Gm-c1004-5129 | TC205641 | 2.13 | |||||
| 4-coumarate:CoA ligase (4CL) | Gm-r1083-3061 | Gm-c1028-3891 | TC205641 | 3.20 | 1.84 | ||||
| 4-coumarate:CoA ligase (4CL) | Gm-r1083-3414 | Gm-c1028-4979 | TC205641 | 2.01 | 1.97 | ||||
| 4-coumarate:CoA ligase (4CL) | Gm-r1070-5094 | Gm-c1016-6727 | TC216082 | 1.67 | 2.50 | 2.17 | |||
| 4-coumarate:CoA ligase (4CL) | Gm-r1021-2223 | Gm-c1004-4431 | TC216190 | 1.75 | 1.49 | ||||
| 4-coumarate:CoA ligase (4CL) | Gm-r1021-3419 | Gm-c1004-7053 | TC216190 | 2.36 | 1.61 | 1.65 | |||
| 4-coumarate:CoA ligase (4CL) | Gm-r1070-3141 | Gm-c1015-4689 | TC216191 | ‡ | 9.45 | 1.80 | |||
| 4-coumarate:CoA ligase (4CL) | Gm-r1070-7534 | Gm-c1029-1150 | TC220028 | 3.23 | 2.89 | 1.54 | 1.88 | ||
| 4-coumarate:CoA ligase (4CL) | Gm-r1083-4331 | Gm-c1028-7642 | TC224198 | 2.93 | 1.57 | ||||
| 4-coumarate:CoA ligase (4CL) | Gm-r1070-3331 | Gm-c1015-4673 | TC225974 | 6.32 | 2.53 | ||||
| 4-coumarate:CoA ligase (4CL) | Gm-r1083-2896 | Gm-c1028-3421 | TC226636 | 2.60 | 2.20 | ||||
| 4-coumarate:CoA ligase (4CL) | Gm-r1083-4078 | Gm-c1028-6958 | TC226636 | 5.28 | 2.13 | 1.28 | 2.16 | ||
| 4-coumarate:CoA ligase (4CL) | Gm-r1070-2770 | Gm-c1015-4573 | TC226637 | 7.06 | 4.96 | 1.56 | |||
| 4-coumarate:CoA ligase (4CL) | Gm-r1070-2942 | Gm-c1015-3925 | NA | 1.77 | 2.36 | 1.53 | 1.85 | ||
| 4-coumarate:CoA ligase (4CL) | Gm-r1083-1803 | Gm-c1013-3118 | TC229241 | 0.13 | 0.43 | ||||
| 4-coumarate:CoA ligase (4CL) | Gm-r1083-779 | Gm-c1009-3084 | TC221808 | 0.34 | 0.36 | ||||
| 4-coumarate:CoA ligase (4CL) | Gm-r1070-515 | Gm-c1008-190 | TC223132 | 0.37 | 0.29 | 0.61 | 0.54 | ||
| Chalcone synthase (CHS) | *Gm-b10BB-5 | Genomic clone | NA | 36.35 | 13.22 | 1.83 | 12.47 | 7.15 | |
| Chalcone synthase (CHS) | Gm-b10BB-6 | Gm-c1004-1721 | TC203259 | 1.07 | 48.80 | 63.70 | 3.31 | 20.48 | 16.68 |
| Chalcone synthase (CHS) | Gm-r1021-84 | Gm-c1004-874 | TC203259 | 30.70 | 37.53 | 1.49 | 9.06 | 7.21 | |
| Chalcone synthase (CHS) | Gm-b10BB-7 | Gm-c1004-2866 | TC203319 | 4.92 | 34.39 | 50.20 | 2.07 | 14.32 | 15.41 |
| Chalcone synthase (CHS) | Gm-r1083-83 | Gm-c1009-670 | TC209602 | 48.84 | 33.82 | 1.61 | 10.48 | 11.39 | |
| Chalcone synthase (CHS) | Gm-r1088-5931 | Gm-c1065-3606 | TC209886 | 20.25 | 15.56 | 3.25 | |||
| Chalcone synthase (CHS) | Gm-b10BB-4 | Gm-c1028-2741 | TC214314 | 60.58 | 23.88 | 1.84 | 17.92 | 9.59 | |
| Chalcone synthase (CHS) | Gm-r1070-3019 | Gm-c1015-4593 | TC214387 | 2.16 | 36.76 | 17.75 | 1.87 | 6.77 | 2.91 |
| Chalcone synthase (CHS) | Gm-b10BB-3 | Gm-c1013-1524 | TC214443 | 44.57 | 17.35 | 1.60 | 10.28 | 6.15 | |
| Chalcone synthase (CHS) | Gm-r1083-556 | Gm-c1009-2808 | TC226663 | 23.10 | 20.97 | 1.45 | 7.36 | 8.40 | |
| Chalcone synthase (CHS) | Gm-r1083-853 | Gm-c1009-4010 | NA | 30.91 | 31.56 | 5.24 | 4.41 | ||
| Chalcone reductase (CHR) | Gm-r1021-1257 | Gm-c1004-2376 | TC225256 | 11.39 | 31.12 | 3.36 | 3.48 | ||
| Chalcone reductase (CHR) | Gm-r1021-720 | Gm-c1004-1818 | TC215169 | 7.01 | 18.77 | 3.94 | 2.20 | ||
| Chalcone reductase (CHR) | Gm-r1021-4150 | Gm-c1004-8921 | TC215169 | 12.17 | 23.51 | 3.93 | 4.24 | ||
| Chalcone reductase (CHR) | Gm-r1021-2517 | Gm-c1004-5030 | TC215169 | 8.94 | 18.25 | 4.82 | 3.20 | ||
| Chalcone reductase (CHR) | Gm-r1021-754 | Gm-c1004-1771 | TC225256 | 8.82 | 32.00 | 3.14 | 2.38 | ||
| Chalcone reductase (CHR) | Gm-r1088-2718 | Gm-c1027-5959 | TC203399 | 0.23 | 0.13 | ||||
| Chalcone reductase (CHR) | Gm-b10BB-36 | Gm-c1062-753 | TC203399 | 0.11 | 0.10 | 0.61 | 0.41 | ||
| Chalcone isomerase (CHI) | Gm-r1021-1566 | Gm-c1004-3954 | TC205496 | 21.11 | 10.70 | 1.71 | 5.82 | 2.03 | |
| Chalcone isomerase (CHI) | Gm-r1021-154 | Gm-c1004-613 | TC205496 | 10.93 | 6.28 | 1.41 | 3.68 | ||
| Chalcone isomerase (CHI) | Gm-r1083-3171 | Gm-c1028-4494 | TC205496 | 6.87 | 3.20 | 2.00 | |||
| Chalcone isomerase (CHI) | Gm-r1021-1440 | Gm-c1004-3529 | TC205536 | 8.63 | 13.45 | 4.63 | 3.58 | ||
| Chalcone isomerase (CHI) | Gm-b10BB-9 | Gm-c1026-2606 | TC205536 | 11.42 | 12.79 | 9.96 | 6.30 | 7.47 | |
| Chalcone isomerase (CHI) | Gm-r1083-43 | Gm-c1009-620 | TC206681 | 12.30 | 16.45 | 5.28 | 4.32 | ||
| Chalcone isomerase (CHI) | Gm-r1070-1290 | Gm-c1010-653 | TC216488 | 2.89 | 3.94 | 1.85 | |||
| Chalcone isomerase (CHI) | Gm-r1083-4382 | Gm-c1028-7808 | TC216488 | 20.68 | 7.21 | 2.51 | 3.23 | ||
| Chalcone isomerase (CHI) | Gm-r1088-8117 | Gm-c1072-871 | TC227583 | 5.17 | 4.23 | 2.06 | |||
| Chalcone isomerase (CHI) | Gm-r1070-3127 | Gm-c1015-4783 | NA | 2.14 | 2.39 | ||||
| Isoflavone synthase (IFS1) | *Gm-10BB-30 | Gm-c1059-264 | NA | 11.09 | 8.35 | 1.39 | 5.40 | 3.79 | |
| Isoflavone synthase (IFS1) | Gm-r1088-8309 | Gm-c1072-1106 | TC204648 | 4.72 | 2.14 | ||||
| Isoflavone synthase (IFS1) | Gm-r1021-1181 | Gm-c1004-3075 | TC215321 | 7.01 | 5.82 | 1.47 | 5.03 | 3.23 | |
| Isoflavone synthase (IFS1) | Gm-r1088-1867 | Gm-c1027-2050 | TC218468 | 3.94 | 4.50 | 2.25 | |||
| Isoflavone synthase (IFS2) | *Gm-b10BB-29 | Gm-c1027-870 | TC204612 | 17.30 | 13.84 | 1.61 | 8.12 | 7.06 | |
| Isoflavone synthase (IFS2) | Gm-r1083-3218 | Gm-c1028-4877 | TC204612 | 15.24 | 20.97 | 1.37 | 6.41 | 6.82 | |
| isoflavone 7-o-methyltransferase (IOMT) | Gm-r1021-2837 | Gm-c1004-6344 | TC206764 | 53.45 | 48.17 | 5.35 | 7.16 | ||
| isoflavone 7-o-methyltransferase (IOMT) | Gm-r1088-8483 | Gm-c1074-35 | TC206765 | 58.89 | 112.99 | 8.28 | 19.29 | ||
| isoflavone 7-o-methyltransferase (IOMT) | Gm-r1088-8769 | Gm-c1074-599 | TC210019 | 78.25 | 95.67 | 4.14 | |||
| isoflavone 7-o-methyltransferase (IOMT) | Gm-r1021-435 | Gm-c1004-1004 | TC215839 | 5.28 | 4.89 | 1.40 | 4.23 | 4.06 | |
| isoflavone 7-o-methyltransferase (IOMT) | Gm-r1021-2886 | Gm-c1004-6334 | TC215839 | 9.06 | 10.27 | 1.84 | 4.50 | 7.89 | |
| Isoflavone reductase (IFR1) | Gm-r1021-2052 | Gm-c1004-4918 | TC206041 | 15.45 | 9.58 | 1.47 | 6.11 | 5.13 | |
| Isoflavone reductase (IFR1) | Gm-r1070-7511 | Gm-c1023-366 | TC207832 | 16.00 | 4.00 | ||||
| Isoflavone reductase (IFR1) | Gm-b10BB-33 | Gm-c1019-3319 | TC207832 | 24.67 | 31.57 | 2.81 | 67.71 | 49.21 | |
| Isoflavone reductase (IFR1) | Gm-r1088-4139 | Gm-c1027-9301 | TC215002 | 14.42 | 24.76 | ||||
| Isoflavone reductase (IFR1) | Gm-r1088-8260 | Gm-c1072-1589 | TC215002 | 15.35 | 7.52 | ||||
| Isoflavone reductase (IFR1) | Gm-r1070-6760 | Gm-c1019-3354 | TC215005 | 50.21 | 55.33 | 2.89 | 18.64 | ||
| Isoflavone reductase (IFR1) | Gm-r1021-3760 | Gm-c1004-8266 | TC226270 | 41.64 | 43.11 | 6.50 | 6.77 | ||
| Isoflavone reductase (IFR1) | Gm-r1083-4951 | Gm-c1028-8510 | TC226270 | 28.84 | 32.22 | 5.90 | 4.56 | ||
| Flavonoid 3'-hydroxylase (F3'H) | Gm-b10BB-22 | Gm-c1053-348 | TC216289 | 1.47 | 1.96 | ‡ | 0.80 | ||
| Flavonoid 3'-hydroxylase (F3'H) | *Gm-b10BB-23 | Gm-c1019-10961 | NA | 0.45 | 1.70 | 0.76 | |||
| Flavanone 3-hydroxylase (F3H) | *Gm-b10BB-12 | Gm-c1012-683 | TC226020 | 0.06 | 0.07 | ||||
| Flavanone 3-hydroxylase (F3H) | Gm-b10BB-13 | Gm-c1019-2646 | TC226020 | 0.24 | 0.18 | 0.67 | |||
| Dihydroflavonol 4-reductase (DFR) | Gm-r1070-8296 | Gm-r1030-1389 | TC225293 | 0.17 | 0.26 | ||||
| Dihydroflavonol 4-reductase (DFR) | Gm-r1021-3500 | Gm-c1004-8647 | TC225293 | 0.17 | 0.26 | ||||
| Dihydroflavonol 4-reductase (DFR) | Gm-r1083-1327 | Gm-c1013-1350 | TC225294 | 0.16 | 0.14 | 0.50 | |||
| Dihydroflavonol 4-reductase (DFR) | Gm-r1088-7258 | Gm-c1067-1717 | TC234668 | 0.12 | 0.20 | ||||
| Dihydroflavonol 4-reductase (DFR) | Gm-r1070-7401 | Gm-c1019-4941 | TC210161 | 4.63 | 9.99 | 5.50 | |||
| Dihydroflavonol 4-reductase (DFR) | Gm-r1083-2198 | Gm-c1028-1633 | TC218842 | 4.92 | |||||
| Leucoanthocyanidin dioxygenase (LDOX) | Gm-r1070-1246 | Gm-c1010-216 | TC217747 | ||||||
| Leucoanthocyanidin dioxygenase (LDOX) | Gm-r1070-7484 | Gm-c1029-932 | TC214271 | 0.38 | 0.35 | ||||
| Leucoanthocyanidin dioxygenase (LDOX) | Gm-r1021-2183 | Gm-c1004-4454 | TC232276 | 1.39 | 1.48 | ||||
| Flavonol synthase (FLS) | Gm-b10BB-15 | Gm-c1016-13124 | NA | 0.51 | 0.52 | ||||
| Flavonol synthase (FLS) | Gm-r1070-4167 | Gm-c1016-3181 | TC208467 | 0.51 | |||||
| Flavonol synthase (FLS) | Gm-r1083-823 | Gm-c1009-3205 | TC218780 | 0.21 | |||||
| Cynnamoyl CoA reductase (CCR) | Gm-r1021-2461 | Gm-c1004-5052 | TC226044 | 4.00 | 2.66 | 2.71 | 1.56 | ||
| Cynnamoyl CoA reductase (CCR) | Gm-r1021-523 | Gm-c1004-1463 | TC204998 | 3.63 | |||||
| Cynnamoyl CoA reductase (CCR) | Gm-r1021-2593 | Gm-c1004-5056 | TC226045 | 3.39 | 2.64 | 3.34 | 1.79 | ||
| Cynnamoyl CoA reductase (CCR) | Gm-r1070-3838 | Gm-c1016-1700 | TC226917 | 7.41 | 2.14 | ||||
| Cynnamoyl CoA reductase (CCR) | Gm-r1088-8005 | Gm-c1072-6 | TC233163 | 5.82 | 3.27 | ||||
| Cynnamoyl CoA reductase (CCR) | Gm-r1070-1367 | Gm-c1008-2980 | TC207664 | 0.10 | 0.10 | 0.61 | |||
| Cynnamoyl CoA reductase (CCR) | Gm-r1070-914 | Gm-c1008-1235 | TC225292 | 0.16 | 0.15 | 0.44 | |||
| Cynnamoyl CoA reductase (CCR) | Gm-r1070-2653 | Gm-c1015-2660 | TC225293 | 0.19 | 0.15 | 0.43 | |||
| Cynnamyl alcohol dehydrogenase (CAD) | Gm-r1083-4523 | Gm-c1028-7532 | TC225589 | 2.13 | 1.99 | 8.06 | |||
| Cynnamyl alcohol dehydrogenase (CAD) | Gm-r1021-3795 | Gm-c1004-7796 | TC204437 | 1.51 | 1.93 | 1.27 | 1.34 | 1.32 | |
| Cynnamyl alcohol dehydrogenase (CAD) | Gm-r1083-2221 | Gm-c1028-695 | TC206457 | 12.73 | 0.56 | 2.07 | 3.36 | ||
| Cynnamyl alcohol dehydrogenase (CAD) | Gm-r1021-1331 | Gm-c1004-3272 | TC225589 | 1.52 | |||||
| Cynnamyl alcohol dehydrogenase (CAD) | Gm-r1021-2196 | Gm-c1004-5210 | TC225589 | 2.25 | 2.55 | ||||
| Cynnamyl alcohol dehydrogenase (CAD) | Gm-r1070-5855 | Gm-c1019-927 | TC227395 | 0.73 | 0.72 | 0.73 | 0.56 | ||
| Cynnamyl alcohol dehydrogenase (CAD) | Gm-r1083-1322 | Gm-c1013-1592 | TC230620 | 0.82 | 0.56 | 0.60 | |||
| Cynnamyl alcohol dehydrogenase (CAD) | Gm-r1083-3802 | Gm-c1028-6101 | TC208568 | 0.39 | 0.32 | 0.56 | 0.59 | ||
| Cynnamyl alcohol dehydrogenase (CAD) | Gm-r1083-4013 | Gm-c1028-6963 | TC225589 | 0.24 | 0.30 | ||||
| Caffeic acid O methyltransferase (COMT) | Gm-r1083-548 | Gm-c1009-2413 | TC212974 | 2.25 | 0.76 | ||||
| Caffeic acid O methyltransferase (COMT) | Gm-r1083-3458 | Gm-c1028-5510 | TC219214 | 1.54 | 1.89 | 1.46 | 1.52 | ||
| Caffeic acid O methyltransferase (COMT) | Gm-r1021-973 | Gm-c1004-2186 | TC226262 | 2.01 | |||||
| Caffeic acid O methyltransferase (COMT) | Gm-r1083-2739 | Gm-c1028-2911 | TC226263 | 2.07 | 1.52 | 1.28 | |||
| Caffeic acid O methyltransferase (COMT) | Gm-r1083-3457 | Gm-c1028-5374 | TC226265 | 2.30 | 2.85 | 1.72 | 1.65 | ||
| Caffeic acid O methyltransferase (COMT) | Gm-r1083-2949 | Gm-c1028-2922 | TC226997 | 11.31 | 9.85 | ||||
| Caffeic acid O methyltransferase (COMT) | Gm-r1070-1306 | Gm-c1008-2760 | TC203610 | 0.19 | 0.09 | ||||
| Caffeic acid O methyltransferase (COMT) | Gm-r1070-1869 | Gm-c1015-70 | TC203610 | 0.18 | 0.10 | ||||
| Caffeic acid O methyltransferase (COMT) | Gm-r1070-3522 | Gm-c1016-846 | TC203610 | 0.14 | 0.10 | ||||
| Caffeoyl Co-A transferase (CCoAMT) | Gm-r1021-3573 | Gm-c1004-7957 | TC204613 | 1.85 | 1.88 | 1.54 | |||
| Caffeoyl Co-A transferase (CCoAMT) | Gm-r1070-3714 | Gm-c1016-1000 | TC204614 | 1.92 | 1.96 | ||||
| Caffeoyl Co-A transferase (CCoAMT) | Gm-r1070-6767 | Gm-c1019-3293 | TC213310 | 4.79 | |||||
| Caffeoyl Co-A transferase (CCoAMT) | Gm-r1083-141 | Gm-c1009-796 | TC215141 | 3.46 | 2.06 | 1.14 | 2.73 | 2.62 | |
| Caffeoyl Co-A transferase (CCoAMT) | Gm-r1083-4593 | Gm-c1028-8263 | TC225342 | 1.93 | |||||
| Caffeoyl Co-A transferase (CCoAMT) | Gm-r1021-1921 | Gm-c1004-4301 | TC225343 | 1.67 | 2.41 | ||||
| Caffeoyl Co-A transferase (CCoAMT) | Gm-r1070-6093 | Gm-c1019-1156 | TC228561 | 2.69 | 6.87 | 3.48 | |||
| Caffeoyl Co-A transferase (CCoAMT) | Gm-r1070-5202 | Gm-c1016-6589 | TC228561 | 2.13 | 2.17 | ||||
| Caffeoyl Co-A transferase (CCoAMT) | Gm-r1088-8678 | Gm-c1074-1097 | TC228993 | 4.69 | 18.13 | ||||
| Caffeoyl Co-A transferase (CCoAMT) | Gm-r1083-956 | Gm-c1009-4174 | TC225339 | 0.62 | 0.50 | ||||
| Caffeoyl Co-A transferase (CCoAMT) | Gm-r1021-427 | Gm-c1004-1316 | TC225339 | 0.45 | 0.44 | 0.83 | |||