Table 4

The comparison of the in silico gene essentiality and experimental P. aeruginosa data are shown under various amino acid auxotrophic conditions.

Amino acid

PP gene

gene

Reaction

iJN746/PA01€ (growth)


Arginine

PP_5185(PP_1346)

argA†,(argJ)

ACGS,(ORNTAC, ACGS)

(+/-)*


PP_5289

argB

ACGK

(-/-)

PP_3633

argC

AGPR

(-/-)

PP_5186,(PP_1346)

argE†,(argJ)

ACODA(ORNTAC, ACGS)

(+/-)*

PP_1088

argG

ARGSS

(-/-)

PP_0184

argH

ARGSL

(-/-)

PP_1346

argJ†

ORNTAC, ACGS

(+/-)*

Histidine


PP_0292

hisA

PRMICIi

(-/-)

PP_0289

hisB

IGPDH

(-/-)

PP_0967

hisC

HSTPTr

(-/-)

PP_0966

hisD

HISTD

(-/-)

PP_5015

hisE

PRATPP

(-/-)

PP_0293

hisF

IG3PS

(-/-)

PP_0965

hisG

ATPPRTr

(-/-)

PP_0290

hisH

IG3PS

(-/-)

PP_5014

hisI

PRAMPC

(-/-)

Isoleucine-valine


PP_3446, PP5149

ilvA-1, ilvA-2

SER_AL, THRD_L

(+/-)*

PP_4680

ilvB (ilvI)£

ACHBS, ACLS

(-/-)

PP_4678

ilvC

KARA1, KARA2

(-/-)

PP_5128

ilvD

DHAD1, DHAD2

(-/-)

PP_3511

ilvE

VALTA, LEUTA, ILETA

(-/-)

PP_4679

ilvN(ilvH)£

ACHBS, ACLS

(-/-)

Leucine


PP_1025

leuA

IPPS

(-/-)

PP_1988

leuB

IPMDr

(-/-)

PP_1985

leuC

IPPMIa, IPPMIb

(-/-)

PP_1986

leuD

IPPMIa, IPPMIb

(-/-)

Tryptophan


PP_0082

trpA

TRPS1r, TRPS3r

(-/-)

PP_0083

trpB

TRPS2, TRPS1r

(-/-)

PP_0422

trpC

IGPS

(-/-)

PP_0421

trpD

ANPRT

(-/-)

PP_0417

trpE

ANS

(-/-)

PP_1995

trpF

PRAI

(-/-)

PP_0420

trpG

ANS

(-/-)


The comparison of the in silico gene essentiality and experimental P. aeruginosa data are shown under various amino acid auxotrophic conditions. The in silico mutants were grown on Glucose-iM9 medium. * No auxotrophy was detected in iJN746, genetic redundancy for these genes was reported in Pseudomonas species. In P. aeruginosa mutants for orthologous genes, a significant residual growth on minimal medium was shown [82]. £ Alternative name in P. aeruginosa. € From [82].

Nogales et al. BMC Systems Biology 2008 2:79   doi:10.1186/1752-0509-2-79

Open Data