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Table 4 Comparison of TraSH and GSMN-TB predictions of gene essentiality with experimentally determined phenotype

From: GSMN-TB: a web-based genome-scale network model of Mycobacterium tuberculosismetabolism

Gene Prediction   Knock-out mutant   Reference
  GSMN-TB TraSH Species Phenotype  
AftA E E C. glutamicum Slow growth [60]
AroK E E M. tuberculosis Essential [79]
Ask E E M. smegmatis Auxotroph [80]
CysH E E M. smegmatis Auxotroph [81]
GlnA1 E E M. tuberculosis Essential [82]
GlnA3 NE NE M. tuberculosis Nonessential [82]
GlnA4 NE NE M. tuberculosis Nonessential [82]
hemZ E E M. tuberculosis Essential [83]
InhA E NE M. smegmatis Ts lethal [31]
ino1 NE NE M. tuberculosis Auxotroph [84]
KasA NE E M. smegmatis Essential [85]
LeuD E E M. tuberculosis Auxotroph [86]
LysA E E M. tuberculosis Auxotroph [87]
manA E E M. smegmatis Hyperseptation and loss of viability [88]
mshB NE NE M. tuberculosis Grows poorly [89]
mshC NE E M. tuberculosis Essential [90]
murD E E M. tuberculosis Nonessential [82]
murI E NE M. tuberculosis Nonessential [82]
Ndh NE NE M. smegmatis Ts lethal [91]
NrdF2 E E M. tuberculosis Essential [92]
OtsA E E M. tuberculosis Slow growth [93]
OtsB2 NE E M. tuberculosis Essential [93]
panCD E NE M. tuberculosis Auxotroph [94]
panCD E E M. tuberculosis Auxotroph [94]
PimA E NE M. smegmatis Essential [95]
PurC E E M. tuberculosis Auxotroph [96]
Purl E E M. tuberculosis Auxotroph [96]
RmlB NE E M. smegmatis Essential [97]
TreS NE NE M. tuberculosis Nonessential [93]
  1. Shown is a comparison of transposon site hybridization (TraSH) and genome-scale metabolic network of M. tuberculosis (GSMN-TB) predictions of gene essentiality with experimentally determined phenotype for genes that have been investigated by specific gene knockout. E, essential; NE, nonessential.