TABLE 1.
Bacterial strains and plasmids
| Strain or plasmid | Relevant genotype or phenotypea | Source or reference |
|---|---|---|
| E. coli strains | ||
| S17-1 | recA pro thi hsdS, RP4-tra functions | 43 |
| XL1-Blue | supE44 hsdR17 recA1 endA1 gyrA46 thi relA1 lacF′[proAB+ lacIqlacZΔM15 Tn10(Tcr)] | Stratagene |
| P. pantotrophus strains | ||
| GB17 | Sox+ Hox+ | L. A. Robertson |
| GB17::pRD123.2 | Sox+ Kmr, cointegrate of pRD123.2 | This study |
| GBsoxFΔ | Sox+soxFΔ | This study |
| Plasmids | ||
| pBluescript SK+ | AprlacZ f1 ori; T7 φ10 promoter | Stratagene |
| pBSK+E1 | 1-kb soxE′F′ EcoRI fragment in pBluescript SK(+) | 50 |
| pSOXF5N | 5-kb NotI wild-type soxFGH fragment in pBluescript SK(+) | This study |
| pEG5 | soxB′CDEF′ in pSUP202 | 49 |
| pUC19 | AprlacZα | 45 |
| pJOE773.2 | AprlacZα′, positive selection vector | 1 |
| pJD1 | KmrlacZ RP4 oriT ColE1ori | 14 |
| pRD119.35 | soxF′GH′ inserted as a 1,991-bp HindIII-SalI fragment (right flank) in pUC19 | This study |
| pRD120.1 | soxD′EF′ inserted as a 1,987-bp HindIII-SalI fragment (left flank) in pUC19 | This study |
| pRD121.1 | Right and left flanks as HindIII-SalI fragments from pRD119.35 and pRD120.1 inserted in SalI site of pJOE773.2 | This study |
| pRD123.2 | 3,978-bp SalI fragment from pRD121.1 soxD′EFΔGH′ in pJD1 | This study |
| pVK101 | Kmr Tcr Tra− Mob+ | 24 |
| pVKB9 | 8,851-bp BamHI fragment orf1′-soxE′ inserted in pVK101 | This study |
a
Hox, growth with molecular hydrogen; Sox, growth with thiosulfate; Tra, transfer of mobilizable plasmids.