TABLE 1.
Bacterial strains and plasmids used in this study
| Organism or plasmid | Characteristics | Reference or source |
|---|---|---|
| Paracoccus denitrificans Pd1222 | Spr Rifr, restriction deficient | 13 |
| Paracoccus denitrificans Pd21.31 | Pd1222 cycA | 44 |
| Paracoccus denitrificans Pd77.71 | Pd1222 nnr | 47 |
| Paracoccus denitrificans Pd29.31 | Pd1222 fnrP::Kmr | 47 |
| Paracoccus denitrificans Pd92.30 | Pd1222 fnrP::Kmrnnr | 47 |
| Paracoccus denitrificans DPΩNOSR | Pd1222 nosR::Smr | This study |
| Paracoccus denitrificans IP1013 | Pd1222 pazS::Kmr | This study |
| Paracoccus denitrificans IP1121 | Pd21.31 pazS::Kmr | This study |
| Escherichia coli XL1-Blue | supE44 hsdR17 recA1 endA1 gyrA46 thi relA1 lac F′ [proAB+lacIqlacZΔM15 Tn10(tetr)] | 8 |
| Escherichia coli GM2163 | F′ dam-13::Tn9 dcm-6 hsdR2 leuB6 his-4 thi-1 ara-14 lacY1 galK2 galT22 xyl-5 mtl-1 rpsL136 tonA31 tsx-78 supE44 McrA− McrB− | 41 |
| Escherichia coli S17-1 | pro thi hsdR− M+recA Strr with integrated RP4 2-(tet::Mu) (kan::Tn7) | 41 |
| Escherichia coli NM554 | F−recA13 araD139 Δ(ara-leu) Δ(lac)X74 galU galK hsdR2 mcrB1 rpsL | 38 |
| pBluescript SK(+) | General cloning vector; Apr | Stratagene |
| pUC18 | General cloning vector; Apr | Amersham Pharmacia Biotech |
| pUC4K | Kmr cassette vector; Apr Kmr | Amersham Pharmacia Biotech |
| pWE16 | Cosmid cloning vector | Stratagene |
| pGRPd1 | Mobilizable suicide vector; Apr Spr/Smr | 44 |
| pHP45Ω | Spr/Smr Ω cassette vector; Apr Spr/Smr | 36 |
| pAR0181 | Mobilizable suicide vector; Kmr | 35 |
| pRK2013 | Helper plasmid, carries tra genes; Kmr | 16 |
| pBK11.paz | 1.9-kb EcoRI-SphI fragment containing the 5′ region of the P. denitrificans pseudoazurin gene, cloned in pBK11a | R. J. M. van Spanning, Vrije Universiteit, Amsterdam, The Netherlands |
| pIP0724 | EcoRI-SphI fragment from pBK11.paz excised with EcoRI-HindIII and cloned in pBluescript SK(+) | This study |
| pDP0725 | EcoRI-SphI fragment from pHP45Ω cloned into MunI-cut pIP0724 | This study |
| pDP0726 | nosR::Ω from pDP0725 ligated to EcoRI-cut pAR0181 | This study |
| cIP0727A | Approximately 50 kb of genomic DNA from P. denitrificans DPΩNOS cloned in pWE16 | This study |
| cIP0728 | cIP027A cut with EcoRI and self-ligated | This study |
| pIP0729 | XhoI-EcoRI fragment from cIP0728 cloned in pBluescript SK(+) | This study |
| pIP0730 | pIP0729 cut with SmaI and self-ligated | This study |
| pIP0731 | BamHI-Acc65I fragment from pIP0729 cloned BamHI-KpnI in pUC18 | This study |
| pIP0515 | pIP0731 cut with BclI and ligated to the BamHI-excised Kmr cassette from pUC4K | This study |
| pIP0516 | BamHI-EcoRI fragment from pIP0515 cloned in pGRPd1 | This study |
a
See reference 21.