Table 1.
Bacterial strains, plasmids and oligonucleotides used in this study
| Strain or plasmid | Characteristics or sequence | Source or reference |
|---|---|---|
| Bradyrhizobium japonicum strains | ||
| USDA110 | Wild-type strain | USDA, Beltsville, MD |
| ΔRND mutant | Deletion of bll7019-bll7021 of USDA110/insertion of Ω; Smr, Spr | This study |
| ΔPHB mutant | Deletion of blr7026-blr7029 of USDA110/insertion of Ω; Smr, Spr | This study |
| Escherichia coli | ||
| JM109 | recA, cloning strain | 49 |
| Plasmidsa | ||
| pK18mob | Mobilizable suicide vector; Kmr | 37 |
| pHP45Ω | Plasmid carrying Ω cassette; Smr, Spr | 33 |
| pRK2013 | ColE1 replicon carrying RK2 transfer genes; Kmr | 12 |
| pK18mob-[NheI frag]::Ω | pK18mob carrying Ω-inserted 11.1 kb NheI fragment from brc02044 clone of USDA110 | 46, This study |
| pK18mob-[HindIII frag]::Ω | pK18mob carrying Ω-inserted 12.2 kb HindIII fragment from brc00911 clone of USDA110 | 46, This study |
| Oligonucleotidesb | ||
| bll7017 F/R | 5′-ACACCTGCTTCTACGTCAAT-3′/5′-CTGAAGCCTTCGAGGATG-3′ | This study |
| bll7018 F/R | 5′-CACATCCGTCACCTACAAC-3′/5′-GCAGTCACTGTCAGAGGAAT-3′ | This study |
| bll7019 F/R | 5′-AACATCTATGCCTTCACCAG-3′/5′-GGAGAATTCGAGATAGATCACC-3′ | This study |
| bll7020 F/R | 5′-CGTCTGGATCGTCAATCA-3′/5′-CTGCTGATCCTGTTCGATA-3′ | This study |
| bll7021 F/R | 5′-GGAACTGTGAGAGTGAAGACC-3′/5′-CCTGCCTTGATCAACACTT-3′ | This study |
| bll7022 F/R | 5′-ATGCCGCGACTTACATT-3′/5′-GACAGCTTGACCTTGATCTC-3′ | This study |
| blr7023 F/R | 5′-AAGCTCATCGAGGAATCGTT-3′/5′-CGTCGCTTCATTCAAGAGTT-3′ | This study |
| bll7024 F/R | 5′-CAATGGATGCTTACCTCAG-3′/5′-TTAGCAGGCGGATCTGTAG-3′ | This study |
| bll7025 F/R | 5′-GCTCTATCGCAGCTTCATT-3′/5′-GCAAGGTAGGTCTCGATGAT-3′ | This study |
| blr7026 F/R | 5′-CAGACATCAGCTTCGAGATA-3′/5′-AACTCCTGCTTGATCCACTT-3′ | This study |
| blr7027 F/R | 5′-GTCTACAACATCGTTCACCTG-3′/5′-GTGCTCTAGATCGAATGTGA-3′ | This study |
| blr7028 F/R | 5′-CCGCTCGTCAAGTATGAAT-3′/5′-GGAACATGCAGTGGTTGTAG-3′ | This study |
| blr7029 F/R | 5′-GTTCAAGTCAGCCTACGTC-3′/5′-GACCTCATCTCTTCTCATCTTG-3′ | This study |
| blr7030 F/R | 5′-ACTCTGCAGCATGGTATGA-3′/5′-ATGAGGAAGGAGCATTGAC-3′ | This study |
| blr7031 F/R | 5′-GCCCAGATGAAGACCTATT-3′/5′-GTCAGACTTCAGCTGCTTG-3′ | This study |
| bll7032 F/R | 5′-TGACGATGAGCAAGCTG-3′/5′-CTCATATGCGCCTTGACT-3′ | This study |
| bll7033 F/R | 5′-CTGGTGTCGTTCTTCATGT-3′/5′-CTTCCACTTGTTGTACTCGTC-3′ | This study |
a
Coordinate of the clones: brc02044, 7,723,981 to 7,747,611; brc00911, 7,735,146 to 7,758,873.
b
Gene numbers are based on Rhizobase (http://www.kazusa.or.jp/rhizobase/) (21).