Table 4.
Transcript changes for BTE-expressing strains versus BTE-H204A-expressing strains cultured in EZ rich defined medium supplemented with 0.2% glucose (EZ glucose) in shake flasks and in EZ rich defined medium supplemented with 0.4% glycerol (EZ glycerol) in fermentorsa
| Protein group and locus | Gene name | Fold transcript changeb in the indicated medium at growth phase |
|||||
|---|---|---|---|---|---|---|---|
| EZ glucose |
EZ glycerol |
||||||
| Mid-log | Early stationary | Mid-stationary | Late log | Early stationary | Mid-stationary | ||
| Phage shock proteins | |||||||
| b1304 | pspA | 9.45 (0.000) | 11.04 (0.001) | 10.47 (0.000) | 12.63 (0.000) | ||
| b1305 | pspB | 5.18 (0.001) | 7.32 (0.001) | 7.09 (0.000) | 12.07 (0.000) | ||
| b1306 | pspC | 4.11 (0.002) | 5.07 (0.000) | 5.34 (0.000) | 8.76 (0.001) | ||
| b1307 | pspD | 4.99 (0.002) | 9.60 (0.002) | 9.78 (0.004) | 19.10 (0.000) | ||
| b1308 | pspE | 2.74 (0.000) | 11.40 (0.008) | 8.35 (0.005) | 19.47 (0.001) | ||
| MarA/Rob/SoxS regulon | |||||||
| b0447 | ybaO | 1.73 (0.018) | 4.64 (0.000) | ||||
| b0463 | acrA | −1.45 (0.005) | |||||
| b0578 | nfsB | 1.37 (0.043) | 1.53 (0.043) | ||||
| b0683 | fur | 1.69 (0.031) | |||||
| b0684 | fldA | 2.80 (0.001) | |||||
| b0819 | ybiS | −2.28 (0.000) | |||||
| b0850 | ybjC | 1.36 (0.004) | 2.65 (0.000) | 1.73 (0.003) | 5.32 (0.002) | ||
| b0851 | nfsA | 2.06 (0.020) | 4.29 (0.000) | 2.32 (0.007) | |||
| b0852 | rimK | 2.54 (0.005) | |||||
| b0853 | ybjN | 1.85 (0.002) | 2.06 (0.079) | ||||
| b0871 | poxB | 1.76 (0.014) | |||||
| b0950 | pqiA | 2.52 (0.003) | 5.92 (0.000) | 2.14 (0.100) | |||
| b0951 | pqiB | 2.94 (0.003) | |||||
| b1014 | putA | 2.53 (0.018) | 1.84 (0.085) | 2.27 (0.046) | |||
| b1053 | mdtG | 1.83 (0.013) | 2.20 (0.007) | 2.09 (0.033) | |||
| b1101 | ptsG | −2.61 (0.000) | −2.86 (0.014) | 1.96 (0.060) | |||
| b1277 | ribA | −1.42 (0.007) | 1.37 (0.052) | ||||
| b1530 | marR | 2.50 (0.037) | 2.72 (0.004) | 5.20 (0.000) | 1.96 (0.031) | 2.79 (0.013) | 5.96 (0.007) |
| b1531 | marA | 1.73 (0.018) | 5.21 (0.000) | 6.25 (0.000) | 2.91 (0.001) | 6.10 (0.010) | |
| b1532 | marB | −1.36 (0.037) | |||||
| b1611 | fumC | 4.39 (0.000) | 8.51 (0.000) | 2.15 (0.013) | |||
| b1852 | zwf | −1.77 (0.001) | |||||
| b1973 | zinT | 1.75 (0.001) | |||||
| b2159 | nfo | 2.00 (0.032) | 2.46 (0.004) | 1.89 (0.044) | |||
| b2237 | inaA | 1.58 (0.001) | 7.72 (0.000) | 5.72 (0.000) | 1.34 (0.073) | 2.10 (0.001) | 7.52 (0.005) |
| b3035 | tolC | −1.03 (0.081) | |||||
| b3037 | ygiB | 1.78 (0.006) | 2.77 (0.003) | 1.33 (0.058) | |||
| b3038 | ygiC | 1.61 (0.002) | 5.53 (0.000) | ||||
| b3506 | slp | 3.95 (0.000) | 22.72 (0.000) | −1.66 (0.049) | |||
| b3507 | dctR | 1.38 (0.006) | 1.69 (0.006) | ||||
| b3508 | yhiD | 2.05 (0.025) | 6.85 (0.020) | ||||
| b3509 | hdeB | 3.94 (0.002) | 67.71 (0.000) | −3.67 (0.018) | |||
| b3510 | hdeA | 3.11 (0.002) | 36.27 (0.000) | −3.27 (0.017) | |||
| b3624 | rfaZ | 1.31 (0.043) | |||||
| b3625 | rfaY | 1.35 (0.038) | |||||
| b3800 | aslB | 1.47 (0.034) | 1.65 (0.028) | ||||
| b3908 | sodA | 1.47 (0.002) | 2.29 (0.001) | 1.49 (0.065) | |||
| b3924 | fpr | −1.24 (0.028) | 1.51 (0.006) | 2.22 (0.014) | |||
| b4025 | pgi | 2.47 (0.020) | −1.58 (0.089) | ||||
| b4062 | soxS | 2.56 (0.008) | 4.52 (0.057) | ||||
| b4177 | purA | −1.78 (0.007) | −5.92 (0.000) | 1.46 (0.087) | |||
| b4396 | rob | 2.85 (0.002) | |||||
| b4637 | uof | 1.32 (0.042) | |||||
| Energy metabolism | |||||||
| b0428 | cyoE | 1.47 (0.010) | 3.65 (0.003) | 1.81 (0.096) | 1.98 (0.042) | ||
| b0429 | cyoD | 2.47 (0.007) | 1.78 (0.057) | 1.95 (0.046) | |||
| b0430 | cyoC | 2.00 (0.015) | 2.05 (0.060) | ||||
| b0431 | cyoB | 2.15 (0.001) | |||||
| b0432 | cyoA | 1.28 (0.037) | 2.24 (0.004) | 1.67 (0.075) | |||
| b0972 | hyaA | 15.29 (0.000) | |||||
| b0973 | hyaB | −1.95 (0.016) | 14.59 (0.000) | ||||
| b0974 | hyaC | 19.18 (0.000) | |||||
| b0975 | hyaD | 12.76 (0.000) | |||||
| b0976 | hyaE | 5.47 (0.001) | |||||
| b0977 | hyaF | 5.06 (0.005) | |||||
| b0978 | appC | −3.07 (0.001) | −1.52 (0.097) | −1.74 (0.014) | −2.95 (0.092) | ||
| b0979 | appB | −2.26 (0.000) | −1.82 (0.016) | −2.76 (0.087) | |||
| b0980 | appA | −2.06 (0.001) | −1.67 (0.074) | −1.98 (0.017) | |||
| b1974 | yodB | −2.57 (0.000) | −2.40 (0.016) | ||||
| b2276 | nuoN | 2.42 (0.015) | |||||
| b2277 | nuoM | −1.81 (0.000) | 2.93 (0.006) | ||||
| b2278 | nuoL | −1.70 (0.001) | 1.68 (0.019) | ||||
| b2279 | nuoK | 1.76 (0.012) | |||||
| b2280 | nuoJ | 1.82 (0.030) | |||||
| b2281 | nuoI | 2.91 (0.008) | 1.92 (0.054) | ||||
| b2282 | nuoH | 3.27 (0.008) | 1.83 (0.071) | ||||
| b2410 | yfeH | 2.53 (0.038) | 1.81 (0.053) | ||||
| b2899 | yqfA | −8.77 (0.006) | −14.66 (0.020) | −32.77 (0.000) | |||
| b2996 | hybA | 2.84 (0.001) | 2.25 (0.015) | −1.26 (0.073) | |||
| b3892 | fdoI | 1.55 (0.042) | 2.91 (0.000) | 2.33 (0.070) | |||
| b3894 | fdoG | −1.21 (0.022) | 2.48 (0.017) | 12.49 (0.000) | 2.32 (0.072) | ||
| b4039 | ubiC | 1.95 (0.007) | 2.60 (0.005) | 2.80 (0.018) | |||
| b4040 | ubiA | 1.75 (0.001) | 2.07 (0.014) | 4.51 (0.001) | |||
| b4154 | frdA | 2.22 (0.001) | 1.83 (0.094) | 1.36 (0.024) | |||
| Unsaturated fatty acid biosynthesis | |||||||
| b0954 | fabA | −2.54 (0.004) | −4.80 (0.000) | −2.94 (0.019) | −3.58 (0.004) | ||
| b2323 | fabB | −1.87 (0.000) | −12.95 (0.001) | −10.28 (0.001) | −27.33 (0.000) | −2.35 (0.099) | |
| Other genes | |||||||
| b0464 | acrR | 1.96 (0.000) | 1.66 (0.018) | 2.60 (0.017) | |||
| b0929 | ompF | −7.72 (0.000) | −10.43 (0.002) | −6.93 (0.037) | |||
| b2684 | mprA | 1.37 (0.023) | 2.10 (0.000) | 6.11 (0.000) | 2.12 (0.082) | 3.44 (0.000) | 10.39 (0.001) |
a
Data shown are from sampling times specified in the text. Only those fold changes with P values greater than 0.05 (EZ glucose) or 0.10 (EZ glycerol) are shown.
b
Data are means, with P values for comparisons of BTE-expressing strains versus BTE-H204A-expressing strains shown in parentheses.