TABLE 7.
In silico results compared to experimental results for the essentiality of 17 genes in the modela
| Deleted reaction | Gene(s) | Locus identification(s) | In vitro essentiality | In silico essentiality in medium
|
Agree- ment | |||
|---|---|---|---|---|---|---|---|---|
| Minimal | Minimal + glucose | Minimal + carbon sources | Minimal + carbon sources + amino acids | |||||
| ACPS | acpS | HP0808 | E | − | − | − | − | Yes |
| AROQ | aroQ | HP1038 | E | − | − | − | − | Yes |
| DCD | dcd | HP0372 | NE | + | + | + | + | Yes |
| EDA | eda | HP1099 | E | + | + | + | + | |
| EDD | edd | HP1100 | E | + | + | + | + | |
| FBP | fbp | HP1385 | E | − | + | + | + | |
| GLCD | glcD | HP0509 | E | − | − | − | − | Yes |
| GPT1/2/3 | gpt | HP0735 | E | + | + | + | + | |
| MQO | mqo | HP0086 | E | − | − | + | + | |
| MURB | murB | HP1418 | E | − | − | − | − | Yes |
| MURF | murF | HP0740 | E | − | − | − | − | Yes |
| OOR | oorA, oorB, oorC, oorD | HP0589, HP0590, HP0591, HP0588 | E | + | + | + | + | |
| POR | porA, porB, porC, porD | HP1110, HP1111, HP1108, HP1109 | E | − | − | − | − | Yes |
| PYRE | pyrE | HP1257 | E | − | − | − | − | Yes |
| SPEE | speE | HP0832 | NE | − | − | − | − | |
| TAL | tal | HP1495 | NE | + | + | + | + | Yes |
| TRXB | trxA, trxB | HP0824, HP0825 | E | − | − | − | − | Yes |
a
All of the essential in silico predictions are shaded, with a − sign indicating the inability to produce the biomass demands. The in vitro essentiality data is taken from reference 10 (E, essential; NE, not essential).