Table 4 The comparison of the in silico gene essentiality and experimental P. aeruginosa data are shown under various amino acid auxotrophic conditions.
From: A genome-scale metabolic reconstruction of Pseudomonas putida KT2440: i JN746 as a cell factory
Amino acid | PP gene | gene | Reaction | iJN746/PA01€ (growth) |
|---|---|---|---|---|
Arginine | PP_5185(PP_1346) | argA†,(argJ) | ACGS,(ORNTAC, ACGS) | (+/-)* |
| Â | PP_5289 | argB | ACGK | (-/-) |
| Â | PP_3633 | argC | AGPR | (-/-) |
|  | PP_5186,(PP_1346) | argE†,(argJ) | ACODA(ORNTAC, ACGS) | (+/-)* |
| Â | PP_1088 | argG | ARGSS | (-/-) |
| Â | PP_0184 | argH | ARGSL | (-/-) |
|  | PP_1346 | argJ†| ORNTAC, ACGS | (+/-)* |
Histidine | Â | Â | Â | Â |
| Â | PP_0292 | hisA | PRMICIi | (-/-) |
| Â | PP_0289 | hisB | IGPDH | (-/-) |
| Â | PP_0967 | hisC | HSTPTr | (-/-) |
| Â | PP_0966 | hisD | HISTD | (-/-) |
| Â | PP_5015 | hisE | PRATPP | (-/-) |
| Â | PP_0293 | hisF | IG3PS | (-/-) |
| Â | PP_0965 | hisG | ATPPRTr | (-/-) |
| Â | PP_0290 | hisH | IG3PS | (-/-) |
| Â | PP_5014 | hisI | PRAMPC | (-/-) |
Isoleucine-valine | Â | Â | Â | Â |
| Â | PP_3446, PP5149 | ilvA-1, ilvA-2 | SER_AL, THRD_L | (+/-)* |
|  | PP_4680 | ilvB (ilvI)£ | ACHBS, ACLS | (-/-) |
| Â | PP_4678 | ilvC | KARA1, KARA2 | (-/-) |
| Â | PP_5128 | ilvD | DHAD1, DHAD2 | (-/-) |
| Â | PP_3511 | ilvE | VALTA, LEUTA, ILETA | (-/-) |
|  | PP_4679 | ilvN(ilvH)£ | ACHBS, ACLS | (-/-) |
Leucine | Â | Â | Â | Â |
| Â | PP_1025 | leuA | IPPS | (-/-) |
| Â | PP_1988 | leuB | IPMDr | (-/-) |
| Â | PP_1985 | leuC | IPPMIa, IPPMIb | (-/-) |
| Â | PP_1986 | leuD | IPPMIa, IPPMIb | (-/-) |
Tryptophan | Â | Â | Â | Â |
| Â | PP_0082 | trpA | TRPS1r, TRPS3r | (-/-) |
| Â | PP_0083 | trpB | TRPS2, TRPS1r | (-/-) |
| Â | PP_0422 | trpC | IGPS | (-/-) |
| Â | PP_0421 | trpD | ANPRT | (-/-) |
| Â | PP_0417 | trpE | ANS | (-/-) |
| Â | PP_1995 | trpF | PRAI | (-/-) |
| Â | PP_0420 | trpG | ANS | (-/-) |