Table 3.
Significant ORFs (p value < 1 × 107) with greater than 4-fold significant changes in expression from late exponential to early stationary phase (4.6 to 5.5 h)
| Ecs no. | Genea | Log2 change in expression | QT cluster | Ecs no. | Genea | Log2 change in expression | QT cluster |
| ECs0009 | mogA | 2.27 | 2 | ECs0526 | htpG | -2.70 | 1 |
| ECs0015 | dnaJ | -2.32 | 1 | ECs0527 | adk | -3.22 | 1 |
| ECs0026 | rpsT | -4.14 | 1 | ECs0540 | O157 | 3.52 | 2 |
| ECs0028 | ribF | -2.36 | 1 | ECs0541 | O157 | 4.11 | 2 |
| ECs0029 | ileS | -2.81 | 1 | ECs0552 | ybbK | 3.00 | 2 |
| ECs0030 | lspA | -2.38 | 1 | ECs0561 | ybbD | 2.16 | 2 |
| ECs0032 | lytB | -2.20 | 1 | ECs0615 | ybdG | -2.36 | 1 |
| ECs0036 | carB | -3.28 | 1 | ECs0619 | ybdK | 2.98 | 2 |
| ECs0052 | ccdA | 2.41 | 2 | ECs0645 | ahpF | -2.11 | 1 |
| ECs0078 | leuA | 2.55 | un | ECs0646 | ybdQ | 3.35 | 3 |
| ECs0108 | guaC | -2.45 | 1 | ECs0656 | citD | 2.79 | 2 |
| ECs0118 | aceE | -3.27 | 1 | ECs0864 | ybhL | 2.61 | 2 |
| ECs0119 | aceF | -2.55 | 1 | ECs0866 | ybhN | 2.27 | 2 |
| ECs0123 | yacL | 3.17 | 2 | ECs0881 | ybiI | 3.35 | 2 |
| ECs0128 | gcd | 2.69 | 2 | ECs0896 | ybiS | -2.07 | 1 |
| ECs0168 | dapD | -3.16 | 1 | ECs0915 | yliG | -2.77 | 1 |
| ECs0172 | tsf | -4.58 | 1 | ECs0919 | dacC | 2.40 | 2 |
| ECs0173 | pyrH | -3.15 | 1 | ECs0934 | potF | 2.12 | 2 |
| ECs0182 | fabZ | -2.20 | 1 | ECs0944 | artM | -2.40 | 1 |
| ECs0199 | yaeC | -3.14 | 1 | ECs0963 | ybjX | -2.08 | 1 |
| ECs0200 | yaeE | -2.63 | 1 | ECs0974 | lrp | -3.19 | 1 |
| ECs0201 | abc | -3.32 | 1 | ECs0979 | dmsA | -3.37 | 4 |
| ECs0216 | O157 | 2.02 | 2 | ECs0989 | ycaP | 2.56 | 2 |
| ECs0248 | fadE | 4.57 | 2 | ECs0990 | serC | -3.29 | 1 |
| ECs0253 | dinJ | 2.46 | 2 | ECs0991 | aroA | -4.24 | 1 |
| ECs0269 | proB | -2.11 | 1 | ECs1007 | mukB | -2.12 | 1 |
| ECs0383 | yahO | 4.53 | 2 | ECs1013 | asnS | -2.74 | 1 |
| ECs0384 | prpR | 3.63 | 2 | ECs1014 | pncB | -2.37 | 1 |
| ECs0390 | codA | -2.78 | 1 | ECs1022 | ycbR | -3.16 | 1 |
| ECs0415 | afuA | 5.21 | 2 | ECs1048 | - | 2.44 | 2 |
| ECs0434 | psiF | 3.83 | 2 | ECs1050 | yccV | 3.88 | 2 |
| ECs0458 | yajC | -2.33 | 1 | ECs1158 | agp | 3.47 | 2 |
| ECs0459 | secD | -2.40 | 1 | ECs1159 | yccJ | 2.12 | 2 |
| ECs0490 | tig | -2.96 | 1 | ECs1211 | O157 | -3.29 | 1 |
| ECs0497 | ybaW | 2.93 | 2 | ECs1266 | phoH | 7.69 | 2 |
| ECs0502 | mdlA | -3.80 | 1 | ECs1351 | terZ | -2.58 | 1 |
| ECs0503 | mdlB | 2.30 | 2 | ECs1355 | terD | -2.53 | 1 |
| ECs0504 | glnK | -3.73 | 1 | ECs1356 | terE | -2.90 | 1 |
| ECs0507 | ybaY | 3.19 | 2 | ECs1423 | - | 2.34 | 2 |
| ECs0509 | ybaA | 2.56 | 2 | ECs1438 | yceP | 4.78 | 2 |
| ECs0518 | aefA | 2.12 | 2 | ECs1466 | yceD | -2.86 | 1 |
| ECs1467 | rpmF | -2.36 | 1 | ECs2307 | ydgG | -2.69 | 1 |
| ECs1500 | potC | -2.14 | 1 | ECs2308 | pntB | -2.80 | 1 |
| ECs1603 | purB | -3.58 | 1 | ECs2314 | rstA | -2.63 | 1 |
| ECs1605 | ycfB | -2.43 | 1 | ECs2319 | manA | -2.47 | 1 |
| ECs1663 | ompT | -2.72 | 1 | ECs2346 | tyrS | -2.97 | 1 |
| ECs1683 | ycgB | 5.36 | 2 | ECs2385 | ynhG | 3.80 | 2 |
| ECs1692 | ymgE | 2.35 | 2 | ECs2387 | sufS | 2.88 | 2 |
| ECs1705 | - | 2.55 | 2 | ECs2389 | sufC | 3.58 | 2 |
| ECs1722 | chaB | 2.85 | 2 | ECs2390 | sufB | 2.93 | 2 |
| ECs1729 | narG | -2.70 | 4 | ECs2391 | sufA | 3.68 | 2 |
| ECs1743 | oppA | -2.75 | 1 | ECs2397 | - | 2.44 | 2 |
| ECs1747 | oppF | -2.11 | 1 | ECs2423 | rplT | -3.11 | 1 |
| ECs1831 | yciG | 2.91 | 2 | ECs2430 | ydiZ | 2.09 | 2 |
| ECs1848 | - | 2.73 | 2 | ECs2450 | ydjS | 3.94 | 2 |
| ECs1849 | acnA | 4.07 | 2 | ECs2451 | astB | 4.11 | 2 |
| ECs1858 | yciR | 3.14 | 2 | ECs2452 | astD | 5.88 | 2 |
| ECs1874 | ycjK | 4.73 | 2 | ECs2453 | astA | 4.62 | 2 |
| ECs1875 | ycjL | 5.14 | 2 | ECs2454 | astC | 6.97 | 2 |
| ECs1914 | ydaA | 2.88 | 2 | ECs2460 | - | -2.03 | 1 |
| ECs1997 | ynaF | 3.42 | 2 | ECs2463 | ynjE | -4.04 | 1 |
| ECs2028 | ydcJ | 3.64 | 2 | ECs2467 | gdhA | -5.15 | 1 |
| ECs2036 | ydcL | 3.78 | 2 | ECs2491 | yeaF | -2.61 | 1 |
| ECs2044 | ydcS | 5.22 | 2 | ECs2492 | yeaG | 4.08 | 2 |
| ECs2045 | ydcT | 5.23 | 2 | ECs2511 | yeaW | 2.43 | 2 |
| ECs2054 | ydcU | 2.59 | 2 | ECs2514 | fadD | 2.50 | 2 |
| ECs2082 | adhP | 3.62 | 2 | ECs2519 | yoaC | 2.05 | 2 |
| ECs2084 | rpsV | 2.45 | 2 | ECs2527 | manX | -2.95 | 1 |
| ECs2086 | osmC | 2.01 | 2 | ECs2528 | manY | -3.21 | 1 |
| ECs2091 | - | 3.38 | 2 | ECs2546 | ydjX | 4.09 | 2 |
| ECs2092 | - | 3.70 | 2 | ECs2560 | eda | -2.65 | 1 |
| ECs2113 | O157 | -3.24 | 1 | ECs2574 | yebC | -2.87 | 1 |
| ECs2118 | ydeV | 3.60 | 2 | ECs2575 | ntpA | -2.15 | 1 |
| ECs2119 | ydeW | 2.54 | 2 | ECs2586 | argS | -2.77 | 1 |
| ECs2120 | - | 4.17 | 2 | ECs2609 | araF | 3.61 | 2 |
| ECs2126 | tam | 2.83 | 2 | ECs2613 | ftn | -3.88 | 1 |
| ECs2145 | ydeI | 3.74 | 2 | ECs2614 | yecH | -2.94 | 6 |
| ECs2146 | ydeJ | 2.05 | 2 | ECs2668 | yedE | -2.15 | 1 |
| ECs2150 | ydfZ | -5.10 | 4 | ECs2669 | yedF | -2.78 | 1 |
| ECs2281 | O157 | 2.30 | 2 | ECs2670 | yedK | 2.55 | 2 |
| ECs2292 | - | 3.22 | 2 | ECs2693 | - | 2.62 | 2 |
| ECs2295 | ynfG | -2.81 | 6 | ECs2785 | erfK | 2.37 | 2 |
| ECs2820 | hisG | -2.80 | 1 | ECs3458 | yfiO | -2.61 | 1 |
| ECs2821 | hisD | -2.57 | 1 | ECs3465 | yfiL | 3.81 | 2 |
| ECs2822 | hisC | -2.52 | 1 | ECs3469 | rplS | -4.28 | 1 |
| ECs2824 | hisH | -2.22 | 1 | ECs3470 | trmD | -5.46 | 1 |
| ECs2837 | wbdQ | -2.35 | 1 | ECs3472 | rpsP | -5.57 | 1 |
| ECs2888 | yegP | 4.47 | 2 | ECs3520 | ygaT | 4.88 | 2 |
| ECs2892 | yegS | 3.38 | 2 | ECs3522 | gabD | 2.53 | 2 |
| ECs2900 | fbaB | 2.45 | 2 | ECs3523 | gabT | 3.14 | 2 |
| ECs2920 | metG | -2.59 | 1 | ECs3533 | ygaM | 3.32 | 2 |
| ECs3022 | yohC | 6.12 | 2 | ECs3554 | alaS | -2.20 | 1 |
| ECs3029 | O157 | 4.04 | 2 | ECs3605 | cysN | -3.19 | 1 |
| ECs3030 | O157 | 3.38 | 2 | ECs3617 | cysH | -2.76 | 1 |
| ECs3053 | yeiJ | -2.67 | 1 | ECs3619 | cysJ | -4.11 | 1 |
| ECs3055 | yeiL | 2.38 | 2 | ECs3655 | ygdH | 2.14 | 2 |
| ECs3073 | yejG | 2.91 | 2 | ECs3669 | - | 2.28 | 2 |
| ECs3077 | rplY | -3.64 | 1 | ECs3742 | ygeV | 3.64 | 2 |
| ECs3078 | yejK | -2.55 | 1 | ECs3750 | ygfJ | 4.14 | 2 |
| ECs3102 | ada | 2.24 | 2 | ECs3761 | - | 2.76 | 2 |
| ECs3114 | gyrA | -3.38 | 1 | ECs3762 | lysS | -2.92 | 1 |
| ECs3181 | pta | -3.50 | 1 | ECs3771 | - | 3.52 | 2 |
| ECs3224 | fadJ | 4.26 | 2 | ECs3772 | yqfB | -2.02 | 1 |
| ECs3225 | fadI | 4.50 | 2 | ECs3784 | serA | -3.66 | 1 |
| ECs3227 | fadL | 5.39 | 2 | ECs3810 | tktA | -4.16 | 1 |
| ECs3230 | yfdC | 2.55 | 2 | ECs3815 | yqgB | -2.40 | 1 |
| ECs3259 | yfdZ | 3.57 | 2 | ECs3833 | ansB | -2.31 | 4 |
| ECs3271 | - | 3.06 | 2 | ECs3896 | yqhE | 2.86 | 2 |
| ECs3272 | nupC | -2.08 | 1 | ECs3904 | ygiS | -2.33 | 1 |
| ECs3278 | gltX | -2.47 | 1 | ECs3948 | rpsU | -3.14 | 1 |
| ECs3286 | cysK | -3.68 | 1 | ECs3955 | ygjG | 5.55 | 2 |
| ECs3293 | cysA | -2.71 | 1 | ECs3963 | ygjL | 4.06 | 2 |
| ECs3302 | yfeX | -2.24 | 1 | ECs3979 | yqjC | 2.12 | 2 |
| ECs3322 | - | 2.10 | 2 | ECs3980 | yqjD | 2.28 | 2 |
| ECs3323 | - | 2.15 | 2 | ECs4033 | yraR | 2.71 | 2 |
| ECs3338 | purC | -5.04 | 1 | ECs4034 | yhbO | 3.67 | 2 |
| ECs3339 | nlpB | -2.13 | 1 | ECs4040 | yhbV | -3.40 | 1 |
| ECs3369 | guaA | -2.99 | 1 | ECs4064 | rpmA | -3.29 | 1 |
| ECs3397 | - | 2.55 | 2 | ECs4068 | murA | -3.01 | 1 |
| ECs3401 | csiE | 3.77 | 2 | ECs4069 | yrbA | -2.73 | 1 |
| ECs3409 | yphA | 3.07 | 2 | ECs4091 | gltB | -3.19 | 1 |
| ECs3434 | lepB | -2.08 | 1 | ECs4092 | gltD | -3.80 | 1 |
| ECs3445 | yfiD | -6.36 | 6 | ECs4104 | rplM | -4.05 | 1 |
| ECs4112 | yhcO | 3.56 | 2 | ECs4404 | yhjG | 2.50 | 2 |
| ECs4127 | accB | -2.57 | 1 | ECs4427 | O157 | 2.20 | 2 |
| ECs4128 | accC | -3.51 | 1 | ECs4433 | yhjY | 3.88 | 2 |
| ECs4133 | fis | -3.76 | 1 | ECs4438 | yiaE | -2.49 | 1 |
| ECs4159 | rplQ | -3.99 | 1 | ECs4440 | yiaG | 2.73 | 2 |
| ECs4160 | rpoA | -4.11 | 1 | ECs4449 | xylF | 2.34 | 2 |
| ECs4163 | rpsM | -3.05 | 1 | ECs4463 | yiaW | 2.75 | 2 |
| ECs4166 | rplO | -3.63 | 1 | ECs4464 | aldB | 3.02 | 2 |
| ECs4167 | rpmD | -3.70 | 1 | ECs4473 | yibH | 3.78 | 2 |
| ECs4168 | rpsE | -3.75 | 1 | ECs4475 | mtlA | 2.84 | 2 |
| ECs4169 | rplR | -3.75 | 1 | ECs4511 | rpmG | -3.21 | 1 |
| ECs4170 | rplF | -3.62 | 1 | ECs4514 | dfp | -2.28 | 1 |
| ECs4171 | rpsH | -4.00 | 1 | ECs4554 | espB | -2.41 | 1 |
| ECs4172 | rpsN | -3.13 | 1 | ECs4555 | espD | -2.60 | 1 |
| ECs4173 | rplE | -4.26 | 1 | ECs4611 | ilvN | 4.84 | 2 |
| ECs4174 | rplX | -4.14 | 1 | ECs4612 | ilvB | 4.41 | 2 |
| ECs4175 | rplN | -4.46 | 1 | ECs4633 | yidB | 3.85 | 2 |
| ECs4176 | rpsQ | -4.30 | 1 | ECs4672 | glmU | -2.20 | 1 |
| ECs4177 | rpmC | -4.12 | 1 | ECs4674 | atpD | -2.97 | 1 |
| ECs4178 | rplP | -3.60 | 1 | ECs4675 | atpG | -3.77 | 1 |
| ECs4179 | rpsC | -5.07 | 1 | ECs4676 | atpA | -4.02 | 1 |
| ECs4180 | rplV | -4.74 | 1 | ECs4677 | atpH | -4.50 | 1 |
| ECs4181 | rpsS | -4.14 | 1 | ECs4678 | atpF | -4.08 | 1 |
| ECs4182 | rplB | -4.83 | 1 | ECs4680 | atpB | -3.27 | 1 |
| ECs4183 | rplW | -5.75 | 1 | ECs4684 | mioC | -2.10 | 1 |
| ECs4184 | rplD | -6.50 | 1 | ECs4686 | asnA | -3.68 | 1 |
| ECs4185 | rplC | -4.69 | 1 | ECs4708 | ilvC | -3.31 | 1 |
| ECs4186 | rpsJ | -5.93 | 1 | ECs4757 | yigM | -2.00 | 1 |
| ECs4189 | - | 3.24 | 2 | ECs4758 | metR | -3.26 | 1 |
| ECs4191 | fusA | -3.27 | 1 | ECs4760 | - | 3.29 | 3 |
| ECs4210 | argD | -2.36 | 1 | ECs4774 | fadB | 6.58 | 2 |
| ECs4212 | fic | 4.44 | 2 | ECs4783 | dsbA | -2.15 | 1 |
| ECs4213 | yhfG | 4.13 | 2 | ECs4785 | yihG | 2.17 | 2 |
| ECs4232 | aroK | -3.21 | 1 | ECs4792 | glnA | -5.34 | 1 |
| ECs4244 | yhgE | -3.33 | 1 | ECs4793 | yihK | -2.43 | 1 |
| ECs4278 | asd | -2.55 | 1 | ECs4847 | yiiS | 2.66 | 2 |
| ECs4299 | ugpB | 6.46 | 2 | ECs4869 | metL | -2.30 | 1 |
| ECs4348 | yhhG | -2.67 | 1 | ECs4884 | yijP | -3.62 | 1 |
| ECs4398 | yhjA | -2.20 | 6 | ECs4889 | argH | -4.04 | 1 |
| ECs4399 | treF | 3.03 | 2 | ECs4898 | murI | -2.51 | 1 |
| ECs4402 | yhjD | 2.51 | 2 | ECs4906 | rplK | -4.80 | 1 |
| ECs4910 | rpoB | -2.90 | 1 | ECs5123 | groES | -3.66 | 1 |
| ECs4911 | rpoC | -2.86 | 1 | ECs5130 | blc | 3.64 | 2 |
| ECs4914 | thiG | -2.22 | 1 | ECs5176 | rpsF | -4.84 | 1 |
| ECs4915 | thiF | -2.80 | 1 | ECs5177 | priB | -5.00 | 1 |
| ECs4916 | thiE | -2.34 | 1 | ECs5178 | rpsR | -4.46 | 1 |
| ECs4917 | thiC | -2.35 | 1 | ECs5179 | rplI | -3.90 | 1 |
| ECs4928 | purD | -4.58 | 1 | ECs5185 | fklB | -2.32 | 1 |
| ECs4933 | aceA | 4.98 | 2 | ECs5194 | ytfJ | 4.59 | 2 |
| ECs4934 | aceK | 2.90 | 2 | ECs5205 | ytfQ | 6.29 | 2 |
| ECs4990 | O157 | 2.13 | 2 | ECs5206 | - | 2.57 | 3 |
| ECs4991 | O157 | 2.12 | 2 | ECs5207 | ytfT | 3.32 | 2 |
| ECs5007 | lysC | -3.43 | 1 | ECs5208 | yjfF | 2.59 | 2 |
| ECs5038 | pfkA | 2.14 | 2 | ECs5211 | yjgA | 2.20 | 2 |
| ECs5039 | yjbR | 2.21 | 2 | ECs5213 | cybC | 2.20 | 2 |
| ECs5049 | actP | 4.17 | 2 | ECs5222 | pyrB | -2.95 | 1 |
| ECs5050 | yjcH | 3.78 | 2 | ECs5253 | O157 | 2.70 | 2 |
| ECs5089 | phnB | 4.22 | 2 | ECs5332 | yjjG | 3.09 | 2 |
| ECs5109 | yjdJ | 3.07 | 2 |
aGenes with "O157" indicate that these are O157-specific ORFs.