TABLE 1.
Bacterial strains and plasmids
| Strain or plasmid | Relevant characteristics | Source or reference |
|---|---|---|
| Strains | ||
| E. coli | ||
| DH5α | F− Δ(lacZYA-argF)U169 recA1 endA1 hsdR17(rK− mK+) phoA supE44 λ− | Vazyme |
| BL21(DE3) | F− ompT hsdS(rB− mB−) gal dcm (DE3) | Vazyme |
| S17-1λpir | Put-Mini-Tn5-Km Ampr Kmr | Zhe Ma, Nanjing Agricultural University |
| DE058 | Wild-type strain-Amps Kms K1 | This study (A0 in Fig. 2) |
| 17-4F | DE058-Tn5-waaO(rfaJ) Nalr Kmr | This study (A1 in Fig. 2) |
| 39-5A | DE058-Tn5-waaO(rfaJ) Nalr Kmr | This study (A2 in Fig. 2) |
| 39-6B | DE058-Tn5-waaO(rfaJ) Nalr Kmr | This study (A3 in Fig. 2) |
| 39-9B | DE058-Tn5-waaO(rfaJ) Nalr Kmr | This study (A4 in Fig. 2) |
| 41-1B | DE058-Tn5-waaO(rfaJ) Nalr Kmr | This study (A5 in Fig. 2) |
| 48-1A | DE058-Tn5-waaT(F3J96-24975) Nalr Kmr | This study (A6 in Fig. 2) |
| 49-3E | DE058-Tn5-waaO(rfaJ) Nalr Kmr | This study (A7 in Fig. 2) |
| 85-6F | DE058-Tn5-neuC Nalr Kmr | This study (A8 in Fig. 2) |
| 73-4F | DE058-Tn5-waaT(F3J96-24975) Nalr Kmr | This study (A9 in Fig. 2) |
| 78-11E | DE058-Tn5-waaT (F3J96-24975) Nalr Kmr | This study (A10 in Fig. 2) |
| 81-1E | DE058-Tn5-waaT(F3J96-24975) Nalr Kmr | This study (A11 in Fig. 2) |
| 63-6E | DE058-Tn5-waaO (rfaJ) Nalr Kmr | This study (A12 in Fig. 2) |
| 93-1F | DE058-Tn5-waaT(F3J96-24975) Nalr Kmr | This study (A13 in Fig. 2) |
| 113-12G | DE058-Tn5-waaO(rfaJ) Nalr Kmr | This study (A14 in Fig. 2) |
| 123-8H | DE058-Tn5-waaO(rfaJ) Nalr Kmr | This study (A15 in Fig. 2) |
| ΔwaaO | Deletion of waaO from DE058 | This study |
| C-ΔwaaO | ΔwaaO-pSTV28-waaO | This study |
| ΔwaaT | Deletion of waaT from DE058 | This study |
| C-ΔwaaT | ΔwaaT-pSTV28-waaT | This study |
| ΔneuC | Deletion of neuC from DE058 | This study |
| C-ΔneuC′ | ΔneuC-pSTV28-neuC | This study |
| ΔwaaW | Deletion of waaW from DE058 | This study |
| C-ΔwaaW | ΔwaaW-pSTV28-waaW | This study |
| Phage | ||
| PN1809-36 | E. coli phage | This study |
| Plasmids | ||
| pKD46 | Amp; expresses λ red recombinase | 43 |
| pKD4 | kan gene, template plasmid | 43 |
| Pcp20 | Cm, Amp, yeast Flp recombinase gene, FLP | 43 |
| pSTV28 | Cm, lacZ | Takara |
| pSTV28-waaO | pSTV28 derivative harboring waaO ORF and its putative promoter | This study |
| pSTV28-waaT | pSTV28 derivative harboring waaT ORF and its putative promoter | This study |
| pSTV28-neuC | pSTV28 derivative harboring neuC ORF and its putative promoter | This study |
| pET28a(+) | Kan, F1 origin, His tag | Novagen |