Table 3.
Genes expressed more highly in untreated P. aeruginosa drip-flow reactor biofilms (n = 6) than in several comparator transcriptomes.
| DFB* | Comp.* | ||||
|---|---|---|---|---|---|
| Gene ID | Name | Rank | Rank | Note | Description |
| PA0038 | 185 | 1734 | hypothetical protein | ||
| PA0105-0107 | coxBA | 174 | 3225 | O2 | cytochrome c oxidase |
| PA0200 | 145 | 3494 | hypothetical protein | ||
| PA0284 | 77 | 712 | hypothetical protein | ||
| PA0409 | pilH | 56 | 539 | Type IV pili biogenesis | |
| PA0515-0519 | nirFCMS | 207 | 2547 | O2 | nitrite reduction |
| PA0523-0524 | norCB | 177 | 3770 | O2 | nitric oxide reductase |
| PA0586-0588 | 123 | 1848 | O2 | conserved hypothetical and serine protein kinase | |
| PA0713 | 103 | 3107 | O2 | conserved hypothetical protein | |
| PA717-0726 | 185 | 3323 | hypothetical proteins of bacteriophage Pf1 | ||
| PA0763 | mucA | 30 | 296 | anti-sigma factor | |
| PA1041 | 47 | 1850 | probable outer membrane protein precursor | ||
| PA1174 | napA | 270 | 2433 | O2 | periplasmic nitrate reductase |
| PA1178 | oprH | 5 | 831 | outer membrane protein H1 precursor | |
| PA1190 | 105 | 3558 | conserved hypothetical protein | ||
| PA1414 | 14 | 756 | hypothetical protein | ||
| PA1431 | rsaL | 45 | 1835 | O2 | regulatory protein |
| PA1555-1556 | 64 | 1312 | O2 | cytochrome c oxidase | |
| PA1592 | 4 | 67 | hypothetical protein | ||
| PA1673 | 152 | 2346 | O2 | hypothetical protein | |
| PA1746 | 173 | 2016 | O2 | hypothetical protein | |
| PA1982-1983 | exaAB | 315 | 5317 | alcohol dehydrogenase, cytochrome c550 | |
| PA2274 | 378 | 3473 | putative monooxygenase | ||
| PA2381 | 64 | 1279 | O2 | conserved hypothetical protein | |
| PA2485 | 161 | 2704 | hypothetical protein | ||
| PA2501 | 133 | 1858 | hypothetical protein | ||
| PA2622 | cspD | 19 | 591 | stationary phase replication inhibitor | |
| PA2754 | 140 | 1797 | conserved hypothetical protein | ||
| PA2780-2781 | 205 | 2983 | hypothetical proteins | ||
| PA2807-2808 | ptrA | 47 | 3378 | Cu | hypothetical and two-component repressor |
| PA2862 | lipA | 176 | 2785 | lactonizing lipase precursor | |
| PA2883 | 121 | 2207 | hypothetical protein | ||
| PA2937 | 53 | 3144 | hypothetical protein | ||
| PA3040 | 40 | 553 | conserved hypothetical protein | ||
| PA3049 | rmf | 11 | 1575 | O2 | ribosome modulation factor |
| PA3126 | ibpA | 134 | 1382 | heat-shock protein IbpA | |
| PA3181 | 226 | 2020 | 2-keto-3-deoxy-6-phosphogluconate aldolase | ||
| PA3186-3190 | oprB | 68 | 1936 | glucose uptake | |
| PA3205 | 16 | 1033 | hypothetical protein | ||
| PA3235 | 101 | 2118 | conserved hypothetical protein | ||
| PA3309 | 33 | 1076 | O2 | universal stress protein | |
| PA3369-3371 | 196 | 3302 | hypothetical proteins | ||
| PA3412 | 163 | 3772 | Cu | probable transcriptional regulator | |
| PA3415 | 225 | 2682 | probable dihydrolipoamide acetyltransferase | ||
| PA3416-3417 | 259 | 2723 | pyruvate dehydrogenase | ||
| PA3418 | ldh | 52 | 2352 | leucine dehydrogenase | |
| PA3515-3519 | 92 | 2804 | Cu | hypothetical proteins and probable lyases | |
| PA3523 | 128 | 3765 | Cu | probable RND efflux membrane fusion protein | |
| PA3552 | pmrH | 269 | 2400 | lipopolysaccharide modification | |
| PA3572 | 107 | 1616 | hypothetical protein | ||
| PA3577 | 253 | 3216 | hypothetical protein | ||
| PA3690-3691 | 57 | 1482 | Cu | probable metal-transporting P-type ATPase | |
| PA3792 | leuA | 38 | 603 | 2-isopropylmalate synthase | |
| PA3819 | 44 | 508 | conserved hypothetical protein | ||
| PA3920 | 79 | 2577 | Cu | probable metal transporting P-type ATPase | |
| PA3973 | 292 | 2829 | probable transcriptional regulator | ||
| PA4352 | 114 | 1316 | O2 | conserved hypothetical protein | |
| PA4550-4551 | fimUpilV | 167 | 2088 | type 4 fimbrial biogenesis proteins | |
| PA4577 | 124 | 2292 | hypothetical protein | ||
| PA4607-4611 | 136 | 2173 | hypothetical proteins | ||
| PA4739 | 143 | 1345 | O2 | conserved hypothetical protein | |
| PA4773,4776 | pmrB | 166 | 2538 | hypothetical and two-component sensor | |
| PA4781-82 | 202 | 2538 | probable two-component response regulator | ||
| PA5100 | hutU | 258 | 2660 | O2 | urocanase |
| PA5212 | 29 | 881 | hypothetical protein | ||
| PA5427 | adhA | 112 | 2664 | O2 | alcohol dehydrogenase |
| PA5446 | 7 | 866 | hypothetical protein | ||
| PA5460 | 118 | 3962 | hypothetical protein | ||
| PA5475 | 294 | 2787 | O2 | hypothetical protein |
*Average Rank in drip flow biofilms (DFB) and three comparator microarray data sets (Comp. Rank) named in the Materials and Methods.