Table 2.
Gene | Exp. 1 | Exp. 2 | Exp. 3 | Exp. 4 | Exp. 5 | Exp. 6 | Exp. 7 |
---|---|---|---|---|---|---|---|
aroA | 0.99 | 1.18 | 1.24 | 0.40 (0.0007)† | 2.67 (0.0020)* | 0.98 | 1.02 |
aroB | 0.92 | 1.06 | 1.37 (0.0003)* | 0.95 (0.0012)† | 1.31 (0.0166)* | 0.96 | 0.99 |
aroC | 1.04 | 1.25 | 0.99 | 1.02 | 0.84 | 1.11 (0.0093)* | 1.01 |
aroD | 0.92 | 1.09 | 1.83 (0.0003)* | 0.99 | 1.07 | 0.73 (0.0001)† | 0.96 |
aroE | 1.24 (0.0066)* | 1.27 (0.0124)* | 2.43 (0.0003)* | 0.62 (0.0007)† | 1.98 (0.0020)* | 1.61 (0.0012)* | 0.98 |
aroF | 1.16 (0.0106)* | 1.11 | 1.11 | 0.77 | 1.25 (0.0068)* | 1.23 (0.0012)* | 1.01 |
aroH | 1.00 | 1.05 | 1.09 | 0.96 | 1.18 | 0.93 | 0.97 |
aroK | 1.02 | 0.94 | 0.99 | 0.73 | 1.21 (0.0068)* | 1.59 (0.0012)* | 0.88 (0.0252)† |
folB | 1.15 | 1.03 | 1.49 (0.0003)* | 1.29 | 0.93 | 1.03 | 0.96 |
folC | 1.31 (0.0046)* | 1.09 | 2.08 (0.0003)* | 0.85 (0.0007)† | 1.79 (0.0020)* | 0.67 (0.0001)† | 0.95 |
folD | 1.06 | 0.95 | 0.89 | 1.17 | 0.82 | 0.98 | 0.67 (0.0022)† |
folK | 1.34 (0.0031)* | 1.02 | 1.37 | 1.02 | 0.93 | 1.03 | 0.98 |
hisA | 1.01 | 0.85 | 2.54 (0.0003)* | 2.25 (0.0007)* | 0.50 (0.0020)† | 0.83 (0.0001)† | 0.99 |
hisB | 1.19 | 0.79 | 2.33 (0.0003)* | 1.38 (0.0007)* | 0.65 (0.0027)† | 0.94 | 1.07 |
hisC | 1.17 | 1.36 (0.0033)* | 3.70 (0.0003)* | 0.83 (0.0007)* | 1.73 (0.0020)* | 1.56 (0.0001)* | 1.09 |
hisD | 1.00 | 0.83 | 2.56 (0.0003)* | 1.49 (0.0007)* | 0.57 (0.0020)† | 0.95 | 0.92 |
hisF | 1.09 | 0.91 | 3.06 (0.0003)* | 1.91 (0.0007)* | 0.56 (0.0020)† | 0.71 (0.0001)† | 1.02 |
hisG | 1.11 | 0.83 | 2.49 (0.0003)* | 2.17 (0.0007)* | 0.47 (0.0020)† | 1.11 (0.0020)* | 0.80 (0.0022)† |
hisH | 0.97 | 0.89 | 1.87 (0.0003)* | 1.62 (0.0007)* | 0.57 (0.0020)† | 0.91 (0.0093)† | 1.00 |
hisI | 1.14 | 0.89 | 3.01 (0.0003)* | 2.15 (0.0007)* | 0.60 (0.0020)† | 0.75 (0.0001)† | 1.11 |
hisJ | 0.82 (0.0046)† | 1.30 (0.0108)* | 1.18 (0.0003)* | 0.93 | 0.92 | 0.91 | 1.00 |
hisS | 1.21 | 1.18 | 1.97 (0.0003)* | 0.79 (0.0012)† | 1.15 | 0.58 (0.0001)† | 0.89 |
hisZ | 1.01 | 1.00 | 2.04 (0.0003)* | 2.26 (0.0007)* | 0.44 (0.0020)† | 1.01 | 0.72 (0.0038)† |
mtrA | 0.99 | 1.43 | 1.76 (0.0003)* | 0.77 (0.0007)† | 1.65 (0.0020)* | 0.56 (0.0001)† | 1.09 |
mtrB | 0.99 | 1.36 | 1.15 | 0.90 (0.0028)† | 1.06 | 0.54 (0.0001)† | 1.16 (0.0127)* |
pabA | 1.10 | 1.10 | 2.64 (0.0003)* | 1.02 | 1.15 | 0.98 | 0.95 |
pabB | 1.02 | 1.09 | 1.05 | 1.39 (0.0081)* | 0.59 (0.0020)† | ND | 0.99 |
pabC | 1.29 (0.0031)* | 1.25 | 3.66 (0.0003)* | 1.03 | 1.15 | 0.80 (0.0001)† | 0.97 |
pheA | 0.91 | 1.14 | 1.31 (0.0003)* | 0.98 (0.0025)† | 1.14 | 0.80 (0.0004)† | 1.12 |
pheB | 1.00 | 0.98 | 1.49 (0.0003)* | 1.17 (0.0104)* | 1.00 | 1.11 (0.0001)* | 1.17 |
pheS | 0.92 | 2.00 (0.0033)* | 2.05 (0.0003)* | 0.79 (0.0007)† | 1.27 (0.0106)* | 0.99 | 1.29 (0.0022)* |
pheT | 0.93 | 1.17 | 1.66 (0.0003)* | ND | 1.00 | 1.19 | 0.91 |
suI | 1.12 | 1.12 | 1.91 (0.0003)* | 1.30 (0.0007)* | 0.98 | 1.17 (0.0019)* | 1.01 |
trpA | 1.49 (0.0031)* | 1.42 | 2.13 (0.0003)* | 0.95 | 1.49 (0.0020)* | 1.54 (0.0001)* | 1.06 |
trpB | 2.34 (0.0031)* | 1.91 (0.0033)* | 2.24 (0.0003)* | 1.39 (0.0012)* | 4.40 (0.0020)* | 7.94 (0.0001)* | 1.50 (0.0022)* |
trpC | 1.16 | 1.38 (0.0124)* | 1.86 (0.0003)* | 1.32 (0.0035)* | 1.56 (0.0020)* | 2.56 (0.0001)* | 1.17 (0.0252)* |
trpD | 1.29 (0.0031)* | 3.56 (0.0033)* | 8.71 (0.0003)* | 1.38 (0.0104)* | 2.45 (0.0020)* | 4.68 (0.0001)* | 1.38 (0.0022)* |
trpE | 0.92 | 5.11 (0.0033)* | 6.63 (0.0003)* | 1.81 (0.0007)* | 1.75 (0.0020)* | 3.15 (0.0001)* | 1.75 (0.0022)* |
trpF | 1.38 (0.0031)* | 2.42 (0.0033)* | 5.13 (0.0003)* | 1.20 | 4.20 (0.0020)* | 5.60 (0.0001)* | 1.10 (0.0070)* |
trpS | 1.36 (0.0031)* | 2.61 (0.0033)* | 0.91 | 1.33 (0.0007)* | 1.13 | 1.80 (0.0001)* | 3.03 (0.0022)* |
tyrA | 1.09 | 1.27 | 2.00 (0.0003)* | 0.96 (0.0081)† | 1.24 | 1.13 (0.0008)* | 1.56 (0.0022)* |
tyrS | 0.88 | 1.42 (0.0124)* | 1.31 (0.0021)* | 0.94 (0.0035)† | 1.08 | 0.75 (0.0001)† | 1.19 (0.0158)* |
tyrZ | 1.00 | 0.88 | 0.80 (0.0007)† | 0.89 | 0.79 | 1.42 (0.0001)* | 1.14 |
ycbK | 0.95 | 2.87 (0.0033)* | 0.61 (0.0003)† | 0.9 | 0.83 | 1.45 (0.0001)* | 3.05 (0.0022)* |
rtpA | 1.12 | 3.46 (0.0033)* | 0.87 | 1.00 | 0.91 | ND | 1.89 (0.0022)* |
The ratios were calculated based on the culture conditions or strain comparisons shown in Table 1. Numbers in parentheses represent the q values determined by sam (similar to P values; refer to text). ND, not determined.
Transcripts that are significantly up-regulated on the basis of sam.
Transcripts that are significantly down-regulated.