TABLE 1.
Bacterial strains and plasmids used in this study
| Strain or plasmid | Relevant characteristics | Reference or sourcea |
|---|---|---|
| Strains | ||
| E. coli S17.1 | RF4 2-Tc::Mu-Km::Tn7 pro res mod+ | 9 |
| E. coli JM109 | recA1 endA1 gyrA96 thi hsdR17 supE44 relA1Δ(lac-proAB)/F′[traD36 proAB+ lacIqlacZΔM15] | Takara |
| R. blasticus TCRI-14 | Natural R. sphaeroides isolate harboring plasmid pMG160 | This study |
| R. sphaeroides ATCC 17023 | Type strain | ATCC |
| R. capsulatus ATCC 33303 | ATCC | |
| R. capsulatus ATCC 23782 | ATCC | |
| R. rubrum ATCC 11170 | Type strain | ATCC |
| R. gelatinosus ATCC 17011 | Type strain | ATCC |
| R. palustris ATCC 17001 | Type strain | ATCC |
| R. palustris No. 7 | Alcohol-assimilating PNSB | 17 |
| Bradyrhizobium sp. strain USDA 4362 | Phototrophic Bradyrhizobium species | USDA |
| Bradyrhizobium sp. strain USDA 4377 | Phototrophic Bradyrhizobium species | USDA |
| B. japonicum ATCC 10324 | Type strain | ATCC |
| Plasmids | ||
| pHSG298 | Kmr, α-lac multicloning site, M13 ori | Takara |
| pHSG298X | Kmr, α-lac multicloning site, M13 ori, additional XhoI site compared to pHSG298 | 25 |
| pHSG299 | Kmr, α-lac multicloning site (reverse direction of pHSG298X and pHSG298), M13 ori | Takara |
| pRK415 | Tetr, α-lac multicloning site, mobilizable (oriT), broad-host-range plasmid RK2 derivative | 28 |
| pDK519 | Kmr, α-lac multicloning site, broad-host-range plasmid RSF1010 derivative | 28 |
| pBBR1MCS2 | Kmr, α-lac multicloning site, broad-host-range | 30 |
| pMG103 | Kmr, α-lac multicloning site, E coli-R. palustris cloning shuttle vector | 25 |
| pMG160 | 3.4-kb natural plasmid (mobS+mobL+repA+) of R. sphaeroides TCRI-14 | This study |
| pMG162 | Kmr, pMG160 linearized with NaeI and ligated to HincII-linearized pHSG298 | This study |
| pMG162-1 | Kmr, pMG162 derivative, deletion of nucleotides 3210-3431 | This study |
| pMG162-2 | Kmr, pMG162 derivative, deletion of nucleotides 2974-3431 | This study |
| pMG162-3 | Kmr, pMG162 derivative, deletion of nucleotides 1-41 (the 4th base of the NaeI site is the coordinate origin) | This study |
| pMG162-4 | Kmr, pMG162 derivative, deletion of nucleotides 1-81 | This study |
| pMG162-5 | Kmr, pMG162 derivative, deletion of nucleotides 1-121 | This study |
| pMG162-6 | Kmr, pMG162 derivative, deletion of nucleotides 1-196 | This study |
| pMG162-7 | Kmr, pMG162 derivative, deletion of nucleotides 1-1165 | This study |
| pMG162-8 | Kmr, pMG162 derivative, deletion of nucleotides 1-1950 | This study |
| pMG162-9 | Kmr, pMG162 derivative, deletion of nucleotides 1-2082 | This study |
| pMG162-10 | Kmr, pMG162 derivative, deletion of nucleotides 1-2227 | This study |
| pMG164 | Kmr, pMG162 derivative, deletion of nucleotides 3210-1950 | This study |
| pMG162-11 | Kmr, pMG162 derivative, 2-bp frameshift at position 161 | This study |
| pMG162-12 | Kmr, pMG162 derivative, 4-bp frameshift at position 992 | This study |
| pMG162-13 | Kmr, pMG162 derivative, 2-bp frameshift at position 2218 | This study |
| pMG162-14 | Kmr, pMG162 derivative, point mutation at positions 117 (G→A) and 119 (G→A) | This study |
| pMG170 | Kmr, 6.1-kb, α-lac multicloning site, pHSG298X ligated to pMG160 | This study |
| pMG171 | Kmr, 6.1-kb, α-lac multicloning site, pHSG299X ligated to pMG160 | This study |
| pMG170-prr | Kmr, pMG170 with a 2.6-kb BamHI-KpnI fragment encoding R. sphaeroides prr genes | This study |
| pRK415-prr | Kmr, pRK415 with a 2.6 kb BamHI-KpnI fragment encoding R. sphaeroides prr genes | This study |
| pBBR1MCS2-prr | Kmr, pBBR1MCS2 with a 2.6-kb BamHI-KpnI fragment encoding R. sphaeroides prr genes | This study |
| pMG170-pckA | Kmr, pMG170 with a 2.3-kb BamHI-PstI fragment encoding R. palustris pckA gene | This study |
| pBBRIMCS2-pckA | Kmr, pBBRIMCS2 with a 2.6-kb BamHI-KpnI fragment encoding R. palustris No. 7 pckA gene | This study |
a
ATCC, American Type Culture Collection; USDA, U. S. Department of Agriculture.