Table I.
A list and additional relevant information of all genes analyzed in the present study
| Pathway | Enzyme | Stepa | Symbol | ATGb | Probesetc | Biosyntheticd | Catabolice |
|---|---|---|---|---|---|---|---|
| Lys metabolism | Monofunctional Asp kinase | 1 | AK | AT3G02020 | 258977_s_at | Yes (Lys) | – |
| AK | AT5G14060 | 258977_s_at | Yes (Lys) | – | |||
| AK1 | AT5G13280 | 250291_at | Yes (Lys) | – | |||
| Asp-semialdehyde dehydrogenase | 2 | ASD | AT1G14810 | 262841_at | Yes | – | |
| Dihydrodipicolinate synthase | 3 | DHDPS1 | AT3G60880 | 251392_at | Yes (Lys) | – | |
| DHDPS2 | AT2G45440 | 245145_at | Yes (Lys) | – | |||
| Dihydrodipicolinate reductase | 4 | DHDPR | AT2G44040 | 267237_s_at | Yes | – | |
| DHDPR | AT3G59890 | 267237_s_at | Yes | – | |||
| DHDPR | AT5G52100 | 248402_at | Yes | – | |||
| l,l-Diaminopimelate aminotransferase | 5 | AGD2 | AT4G33680 | 253308_at | Yes | – | |
| Diaminopimelate epimerase | 6 | DAPE | AT3G53580 | 251948_at | Yes | – | |
| Diaminopimelate decarboxylase | 7 | DAPD | AT3G14390 | 258365_s_at | Yes | – | |
| DAPD | AT5G11880 | 258365_s_at | Yes | – | |||
| Lys-ketoglutarate reductase/saccharopine dehydrogenase | 8 | LKR/SDH | AT4G33150 | 253373_at | – | Lys | |
| Met metabolism | Asp kinase/homo-Ser dehydrogenase | 9 | AK/HSDH1 | AT1G31230 | 263696_at | Yes (Thr) | – |
| AK/HSDH2 | AT4G19710 | 254535_at | Yes (Thr) | – | |||
| Asp-semialdehyde dehydrogenase | 2 | ASD | AT1G14810 | 262841_at | Yes | – | |
| Homo-Ser kinase | 10 | HSK | AT2G17265 | 264855_at | Yes | – | |
| Cystathionine γ-synthase | 11 | CGS1 | AT3G01120 | 259279_at | Yes | – | |
| CGS | AT1G33320 | 256531_at | Yes | – | |||
| Cystathionine β-lyase | 12 | CBL | AT3G57050 | 251666_at | Yes | – | |
| Met synthase | 13 | MS1 | AT5G17920 | 259343_s_at | Yes | – | |
| MS2 | AT3G03780 | 259343_s_at | Yes | – | |||
| MS3 | AT5G20980 | 246185_at | Yes | – | |||
| S-Adenosyl-Met synthetase | 14 | SAMS1 | AT1G02500 | 260913_at | – | Met | |
| SAMS4 | AT2G36880 | 263838_at | – | Met | |||
| SAMS3 | AT3G17390 | 258415_at | – | Met | |||
| SAMS2 | AT4G01850 | 255552_at | – | Met | |||
| Met γ-lyase | 15 | MGL | AT1G64660 | 261957_at | – | Met | |
| Methylthioalkylmalate synthase | 16 | MAM1 | AT5G23010 | 249866_at | – | Met | |
| MAM-L | AT5G23020 | 249867_at | – | Met | |||
| Met-oxo-acid transaminase | 17 | BCAT4 | AT3G19710 | 257021_at | – | Met | |
| Thr metabolism | Asp kinase/homo-Ser dehydrogenase | 9 | AK/HSDH1 | AT1G31230 | 263696_at | Yes (Thr) | – |
| AK/HSDH2 | AT4G19710 | 254535_at | Yes (Thr) | – | |||
| Asp-semialdehyde dehydrogenase | 2 | ASD | AT1G14810 | 262841_at | Yes | – | |
| Homo-Ser kinase | 10 | HSK | AT2G17265 | 264855_at | Yes | – | |
| Thr synthase | 18 | TS | AT1G72810 | 262380_at | Yes | – | |
| TS | AT4G29840 | 253700_at | Yes | – | |||
| Thr aldolase | 19 | THA1 | AT1G08630 | 264777_at | – | Thr | |
| THA2 | AT3G04520 | 258599_at | – | Thr | |||
| Ile, Leu, and Val metabolism | Thr deaminase | 20 | TD | AT3G10050 | 258884_at | Yes (Ile) | Thr |
| Acetolactate synthase | 21 | AHASS1 | AT2G31810 | 263460_at | Yes (Ile,Leu,Val) | – | |
| AHASS2 | AT5G16290 | 250111_at | Yes (Ile,Leu,Val) | – | |||
| AHAS | AT3G48560 | 252325_at | Yes (Ile,Leu,Val) | – | |||
| Ketol acid reductoisomerase | 22 | KARI | AT3G58610 | 251536_at | Yes | – | |
| Branched-chain amino acid aminotransferase | 23 | BCAT1 | AT1G10060 | 264525_at | – | Ile,Leu,Val | |
| BCAT2 | AT1G10070 | 264524_at | – | Ile,Leu,Val | |||
| BCAT3 | AT3G49680 | 252274_at | – | Ile,Leu,Val | |||
| BCAT5 | AT5G65780 | 247158_at | – | Ile,Leu,Val | |||
| BCAT6 | AT1G50110 | 261636_at | – | Ile,Leu,Val | |||
| BCAT7 | AT1G50090 | 261690_at | – | Ile,Leu,Val | |||
| Isopropylmalate synthase | 24 | IPMS1 | AT1G18500 | 261668_at | Yes (Leu) | – | |
| IPMS2 | AT1G74040 | 260384_at | Yes (Leu) | – | |||
| 3-Isopropylmalate dehydrogenase | 25 | IMD1 | AT5G14200 | 263706_s_at | Yes | – | |
| IMD2 | AT1G80560 | 260285_at | Yes | – | |||
| IMD3 | AT1G31180 | 263706_s_at | Yes | – | |||
| Trp metabolism | Anthranilate synthase β | 26 | ASB | AT1G24807 | 247864_s_at | Yes (Trp) | – |
| ASB | AT1G24909 | 247864_s_at | Yes (Trp) | – | |||
| ASB | AT1G25083 | 247864_s_at | Yes (Trp) | – | |||
| ASB | AT1G25155 | 247864_s_at | Yes (Trp) | – | |||
| ASB | AT1G25220 | 247864_s_at | Yes (Trp) | – | |||
| ASB | AT5G57890 | 247864_s_at | Yes (Trp) | – | |||
| Anthranilate synthase α | 27 | ASA1 | AT5G05730 | 250738_at | Yes (Trp) | – | |
| ASA2 | AT2G29690 | 266671_at | Yes (Trp) | – | |||
| ASA | AT3G55870 | 251716_at | Yes (Trp) | – | |||
| Anthranilate phosphoribosyltransferase | 28 | TRP | AT1G70570 | 260311_at | Yes | – | |
| TRP1 | AT5G17990 | 250014_at | Yes | – | |||
| Phosphoribosylanthranilate isomerase | 29 | PAI1 | AT1G07780 | 259770_s_at | Yes | – | |
| PAI2 | AT5G05590 | 259770_s_at | Yes | – | |||
| PAI3 | AT1G29410 | 259770_s_at | Yes | – | |||
| Indole-3-glycerol phosphate synthase | 30 | IGPS | AT2G04400 | 263807_at | Yes | – | |
| IGPS | AT5G48220 | 248688_at | Yes | – | |||
| Trp synthase α | 31 | TSA2 | AT3G54640 | 251847_at | Yes | – | |
| TSA | AT4G02610 | 255487_at | Yes | – | |||
| Trp synthase β | 32 | TSB1 | AT5G54810 | 253898_s_at | Yes | – | |
| TSB2 | AT4G27070 | 253898_s_at | Yes | – | |||
| TSB | AT5G38530 | 249515_at | Yes | – | |||
| Cytochrome P450 | 33 | CYP79B3 | AT2G22330 | 264052_at | – | Trp | |
| CYP79B2 | AT4G39950 | 252827_at | – | Trp | |||
| Phe and Tyr metabolism | Chorismate mutase | 34 | CM1 | AT3G29200 | 257746_at | Yes (Tyr, Phe) | – |
| CM2 | AT5G10870 | 250407_at | Yes | – | |||
| CM3 | AT1G69370 | 260360_at | Yes (Tyr, Phe) | – | |||
| Arogenate dehydrogenase | 35 | AAT1 | AT5G34930 | 255859_at | Yes (Tyr) | – | |
| AAT2 | AT1G15710 | 259486_at | Yes (Tyr) | – | |||
| Tyr aminotransferase | 36 | TAT3 | AT2G24850 | 263539_at | – | Tyr | |
| TAT | AT5G53970 | 248207_at | – | Tyr | |||
| Arogenate dehydratase | 37 | PD1 | AT2G27820 | 266257_at | Yes | – | |
| PD | AT1G08250 | 261758_at | Yes | – | |||
| PD | AT1G11790 | 262825_at | Yes | – | |||
| PD | AT3G07630 | 259254_at | Yes | – | |||
| PD | AT3G44720 | 252652_at | Yes | – | |||
| PD | AT5G22630 | 249910_at | Yes | – | |||
| Phe-Ala ammonia lyase | 38 | PAL1 | AT2G37040 | 263845_at | – | Phe | |
| PAL2 | AT3G53260 | 251984_at | – | Phe | |||
| PAL3 | AT5G04230 | 245690_at | – | Phe | |||
| Pro and Arg metabolism | Δ-1-Pyrroline-5-carboxylate synthetase | 39 | P5CS1 | AT2G39800 | 251775_s_at | Yes (Pro) | – |
| P5CS2 | AT3G55610 | 251775_s_at | Yes (Pro) | – | |||
| Pyrroline-5-carboxylate reductase | 40 | P5CR | AT5G14800 | 246594_at | Yes | – | |
| Pro dehydrogenase | 41 | ERD5 | AT3G30775 | 257315_at | – | Pro | |
| PRODH | AT5G38710 | 249527_at | – | Pro | |||
| 1-Pyrroline-5-carboxylate dehydrogenase | 42 | P5CDH | AT5G62530 | 247436_at | Yes | – | |
| Orn δ-aminotransferase | 43 | δ-OAT | AT5G46180 | 248879_at | Yes | – | |
| Orn carbamoyltransferase complex | 44 | OCT | AT1G75330 | 261122_at | Yes | – | |
| Arginosuccinate synthase | 45 | ARS | AT4G24830 | 254134_at | Yes | – | |
| Argininosuccinate lyase | 46 | ARL | AT5G10920 | 250403_at | Yes | – | |
| Arg decarboxylase | 47 | ADC1 | AT2G16500 | 263241_at | – | Arg | |
| ADC2 | AT4G34710 | 253203_at | – | Arg | |||
| Arg | 48 | ARGAH1 | AT4G08900 | 255065_s_at | – | Arg | |
| ARGAH2 | AT4G08870 | 255065_s_at | – | Arg |
a
Step numbers represent enzymatic steps described in Figure 1.
b
ATG represents the common locus number using TAIR nomenclature.
c
Probeset represents specific identifiers according to Affymetrix AtH1 microarray.
d
Biosynthetic enzymes. For biosynthetic/allosteric enzymes, the inhibiting amino acid is indicated.
e
Catabolic enzymes. The amino acid substrate of each catabolic enzyme is indicated.