Table 1 Bacterial strains and plasmids used in this work
Strain or plasmid | Relevant characteristics a | Reference or source |
|---|---|---|
Escherichia coli | ||
DH5α | Cloning host; F− λ− endA1 glnX44(AS) thiE1 recA1 relA1 spoT1 gyrA96(NalR) rfbC1 deoR nupG Φ80(lacZΔM15) Δ(argF-lac)U169 hsdR17(r K − m K +) | [60] |
DH5α λpir | Cloning host; λpir lysogen of strain DH5α | [61] |
HB101 | Helper strain; F− λ− hsdS20(r B − m B −) recA13 leuB6(Am) araC14 Δ(gpt-proA)62 lacY1 galK2(Oc) xyl-5 mtl-1 thiE1 rpsL20(SmR) glnX44(AS) | [62] |
Pseudomonas putida | ||
KT2440 | Wild-type strain; mt-2 derivative cured of the TOL plasmid pWW0 | [52] |
KT2440 Δall-Φ | KT2440 derivative; Δprophage1 Δprophage4 Δprophage3 Δprophage2 | [36] |
EM42 | KT2440 derivative; Δprophage1 Δprophage4 Δprophage3 Δprophage2 ΔTn7 ΔendA-1 ΔendA-2 ΔhsdRMS Δflagellum ΔTn4652 | This work |
EM383 | KT2440 derivative; EM42 ΔrecA | This work |
Plasmids | ||
pRK600 | Helper plasmid used for conjugation; oriV(ColE1), RK2(mob + tra +); CmR | [63] |
pEMG | Plasmid used for deletions; oriV(R6K), lacZα fragment with two flanking I-SceI recognition sites; KmR | [58] |
pSW-I | Helper plasmid used for deletions; oriV(RK2), xylS, Pm→I-SceI; ApR | [64] |
pEMG-Tn7 | pEMG bearing an 1.6-kb TS1-TS2 EcoRI-XmaI insert for deleting the PP5404-PP5407 operon | This work |
pEMG-endA-1 | pEMG bearing an 1-kb TS1-TS2 XmaI-BamHI insert for deleting the endA-1 gene | This work |
pEMG-endA-2 | pEMG bearing an 1-kb TS1-TS2 EcoRI-BamHI insert for deleting the endA-2 gene | This work |
pEMG-hsdRMS | pEMG bearing an 1.3-kb TS1-TS2 EcoRI-BamHI insert for deleting the hsdRMS operon | This work |
pEMG-flagella | pEMG bearing an 1.5-kb TS1-TS2 EcoRI-BamHI insert for deleting the flagellar operon | [57] |
pEMG-Tn4652 | pEMG bearing an 1-kb TS1-TS2 XmaI-BamHI insert for deleting the Tn4652 transposon | This work |
pEMG-recA | pEMG bearing an 1-kb TS1-TS2 EcoRI-BamHI insert for deleting the recA gene | [36] |
pSEVA221 | Cloning vector; oriV(RK2); standard multiple cloning site; KmR | [65] |
pSEVA251 | Cloning vector; oriV(RFS1010); standard multiple cloning site; KmR | [65] |
pGL-XP | Expression plasmid; oriV(pBBR1), oriT, xylS, Pm→gfp-luxCDABE; KmR SmR | Benedetti et al., in preparation |