Appendix 1—table 1. Short list of genes involved in biological processes that are differentially regulated in low compared to high tachyplesin-nitrobenzoxadiazole (NBD) accumulators.
The complete list of genes involved in these processes is reported in Figure 3—source data 3.
| Cluster | Regulation in Low Tachyplesin-NBD Accumulators | |
|---|---|---|
| Up | Down | |
| Translation | ||
| 2 | - | infC |
| Ribosomal Proteins | ||
| 2 | - | rplABCDEFKLMNOQRTUWX, rpmACDJ, rpsCDEFHJKMNOS |
| 3 | - | rplPSVY, rpmI, rpsABIPQR |
| RNA Polymerase and Transcription | ||
| 2 | - | rpoBCS |
| DNA Replication and Repair | ||
| 2 | - | gyrAB, hupB, mutY, parC, topA |
| 3 | - | mutMT, ruvA |
| Glucose Metabolism | ||
| 2 | - | pgm |
| Persistence Related Genes | ||
| 1 | spot, dinG | - |
| 2 | relA, uvrD, plsB, phoU | crp, hupB |
| 3 | - | dnaJ, dnaK, lon, soxS |
| 5 | - | pspABCDEG |
| MFS Efflux Pumps | ||
| 1 | mdfA, mdtG | - |
| 4 | emrK, mdtML | - |
| ABC Transporters | ||
| 1 | mdlA, sapACDF, yadG | - |
| 3 | dppA, oppC, yejA | ybhRS, yhhJ |
| 4 | ddpABCDF, dppBCDF, hisM, ydcSTUV | - |
| RND Efflux Pumps | ||
| 1 | mdtEF | - |
| 2 | - | acrB, mdtA |
| MATE-Type Efflux Pumps | ||
| 2 | - | mdtK |
| Outer Membrane Efflux Proteins | ||
| 1 | tolC | - |
| Porins | ||
| 3 | - | ompCF |
| LPS Biosynthesis, Assembly, Export, and Modification | ||
| 1 | arnBT, lplT, lptABCD, pgpB, pssA, waaCF, yafK | - |
| 2 | gmhA, lpxA, psd | clsB, lptEG, eptA |
| 3 | - | lpxC, pagP, pgpAC |
| 4 | arnF | - |
| Fatty Acid Biosynthesis | ||
| 1 | - | fabA |
| 2 | - | fabB |
| Outer Membrane Vesicles | ||
| 1 | nlpA, waaCF | - |
| 2 | lysS | pal, tolAB |
| 3 | - | degP, mrcB, ompAC |
| Peptidases | ||
| 1 | lepB, pepD, yafK | prlC |
| 2 | pepQ | map |
| 3 | - | ampH, dacC, lspA, mepM, pepBT |
| 4 | ddpX, pbpG | - |
| 5 | - | - |
| Proteases | ||
| 1 | degQ, pmbA, ptrB | - |
| 2 | ptrA | clpA, hflC |
| 3 | - | degP, ftsH, loiP, lon, ompT, prc, yccA, ydgD |
| 5 | - | htpX |
| Biofilm and Curli Biosynthesis | ||
| 3 | - | bssRS, tabA |
| 4 | csgCDEFG | - |