Table 1 The median evolutionary rates of COGs and SOGs when different confounding factors are controlled.
confounding factors | comparison | #gene (COG/SOG) | dN | dS | dN/dS | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
COGs | SOGs | p-value | COGs | SOGs | p-value | COGs | SOGs | p-value | |||
nonessential gene | |||||||||||
ECO-KPN | 121/1426 | 0.076 | 0.067 | * | 1.6811 | 1.466 | *** | 0.0481 | 0.0463 | - | |
ECO-STM | 240/1582 | 0.057 | 0.045 | *** | 1.5921 | 1.1926 | *** | 0.0395 | 0.0381 | - | |
essential gene | |||||||||||
ECO-KPN | 8/224 | 0.045 | 0.041 | - | 1.374 | 0.978 | - | 0.042 | 0.046 | - | |
ECO-STM | 17/225 | 0.025 | 0.025 | - | 0.785 | 0.825 | - | 0.029 | 0.032 | - | |
non-highly expressed gene | |||||||||||
ECO-KPN (log phase) | 106/1240 | 0.082 | 0.074 | - | 1.721 | 1.561 | ** | 0.049 | 0,047 | - | |
ECO-KPN (stationary phase) | 103/1342 | 0.077 | 0.066 | - | 1.686 | 1.457 | *** | 0.048 | 0.046 | - | |
STM-KPN (log phase) | 88/1416 | 0.077 | 0.068 | - | 1.845 | 1,507 | *** | 0.042 | 0.045 | - | |
STM-KPN (stationary phase) | 80/1475 | 0.077 | 0.065 | - | 1.77 | 1.458 | *** | 0.042 | 0.046 | - | |
highly expressed | |||||||||||
ECO-KPN (log phase) | 23/415 | 0.045 | 0.037 | - | 1.352 | 0.896 | ** | 0.042 | 0.044 | - | |
ECO-KPN (stationary phase) | 26/313 | 0.064 | 0.047 | - | 1.459 | 1.142 | * | 0.047 | 0.045 | - | |
STM-KPN (log phase) | 18/287 | 0.06 | 0.037 | - | 1.384 | 0.895 | * | 0.046 | 0.046 | - | |
STM-KPN (stationary phase) | 26/228 | 0.075 | 0.053 | * | 1.845 | 1.273 | *** | 0.042 | 0.044 | - | |