Table 1.
Plasmids used in the study
| Plasmid category and name | Description/relevant featuresa | Source or reference |
|---|---|---|
| Basic cloning plasmids | ||
| pAK200 | pBBR oriV; Kmr | 18 |
| pAK206 | pBBR oriV; Gmr | 18 |
| pAK200Cm | pAK200 derivative; Cmr | This study |
| pBBR1MCS5 | pBBR oriV; Gmr | 32 |
| pCM62 | IncP oriV; ColE1 oriV; RP4 oriT; Tcr | 33 |
| pME6010 | pVS1 oriV; p15A oriV; Tcr | 34 |
| Standard PQ5-based plasmids | ||
| pQF | pCM62 with cymR*, PQ5, and MCS for N- and C-terminal fusions to 3×FLAG tag; Tcr | This study |
| pQH | pQF derivative for C-terminal fusion to 3×FLAG and N-terminal fusion to HA tag; Tcr | This study |
| pQM | pQF derivative for C-terminal fusion to 3×FLAG and N-terminal fusion to myc tag; Tcr | This study |
| pQG | pQF derivative for C-terminal fusion to 3×FLAG and N-terminal fusion to EGFP; Tcr | This study |
| pQY | pQF derivative for C-terminal fusion to 3×FLAG and N-terminal fusion to SYFP2; Tcr | This study |
| pQR | pQF derivative for C-terminal fusion to 3×FLAG and N-terminal fusion to mCherry; Tcr | This study |
| pQC | pQF derivative for C-terminal fusion to 3×FLAG and N-terminal fusion to ECFP; Tcr | This study |
| pQH2 | pQH derivative with pBBR oriV; Tcr | This study |
| pQFD | pQF derivative with Gateway cassette; contains ccdB; Cmr Tcr | This study |
| pQHD | pQH derivative with Gateway cassette; contains ccdB; Cmr Tcr | This study |
| pQMD | pQM derivative with Gateway cassette; contains ccdB; Cmr Tcr | This study |
| pQGD | pQG derivative with Gateway cassette; contains ccdB; Cmr Tcr | This study |
| pQYD | pQY derivative with Gateway cassette; contains ccdB; Cmr Tcr | This study |
| pQRD | pQR derivative with Gateway cassette; contains ccdB; Cmr Tcr | This study |
| Reporter plasmids | ||
| pTOPO-TERM193 | pCR2.1-TOPO with TERM193; Kmr | This study |
| pAK127 | pCM62 with TERM193; Tcr | This study |
| pAK127lacZ | Promoter-probe plasmid (intermediate construct); pAK127 with E. coli lacZ; Tcr | This study |
| pAK127lacZ(MCS) | Promoter-probe plasmid (intermediate construct); pAK127lacZ with new MCS; Tcr | This study |
| pAK200Cm-lacZ | Promoter-probe plasmid (intermediate construct); pAK200Cm with TERM193-MCS-lacZ fragment of pAK127lacZ(MCS); Cmr | This study |
| pAK501 | Promoter-probe plasmid; pME6010 with TERM193-MCS-lacZ-cat fragment of pAK200Cm-lacZ; Cmr | This study |
| pAK501-nepRp | nepR promoter (from −42 to −2) in pAK501; Cmr | This study |
| pAK128 | Promoter-probe plasmid; pAK127 with SYFP2; Tcr | This study |
| pQF-lacZ | pCM62-based reporter plasmid with cymR* and PQ5-lacZ+ fusion; Tcr | This study |
| pLM05 | Promoter-probe plasmid carrying luxCDABE from Photorhabdus luminescens; Kmr | 27 |
| pQ5-lux | pLM05 with cymR* and PQ5-luxCDABE fusion; Kmr | This study |
| pQ2148 | pQH derivative in which Psyn2 is replaced by the META1_2148 promoter from M. extorquens AM1; Tcr | This study |
| pQ2148-lacZ | Reporter plasmid; pQ2148 with lacZ; Tcr | This study |
| pQ2148-lux | pLM05 with cymR* and PQ2148-luxCDABE fusion; Kmr | This study |
| Other plasmids | ||
| pQH-PhyP | pQH derivative encoding PhyP-3×FLAG fusion; Tcr | This study |
| pAK200-QPhyP | pAK200 derivative with PQ5 driving PhyP-3×FLAG expression; Kmr | This study |
| pCM62-PhyR | pCM62 harboring phyR under the control of its native promoter and RBS; Tcr | 18 |
| pCM62-PhyR(D194A) | pCM62 harboring phyR(D194A) under the control of its native promoter and RBS; Tcr | 18 |
a
Cmr, chloramphenicol resistance; Gmr, gentamicin resistance; Kmr, kanamycin resistance; Tcr, tetracycline resistance.