Bacterial strains and plasmids | Â | Characteristics | Source or reference |
---|---|---|---|
E. coli strains | K12 | Isolate MG1655 | Dr. Sydney Kustu, University of California |
 | ΔarcA | ΔarcA::kan derivative of K12 | This study |
 | ΔarcB | ΔarcB::cm derivative of K12 | This study |
 | arcB::kan | derivative of K12 in which Kanr was inserted adjacent to arcB while maintaining the function of arcB | This study |
 | ΔarcB-rev | kan derivative of ΔarcB with arcB::cm replaced by wild type arcB | This study |
 | ΔfliC | fliC non-polar deletion mutant of K12 | This study |
 | ΔarcA/ΔfliC | ΔarcA::kan/ΔfliC derivative of K12 | This study |
Plasmids | pRB3-273C | Apr, low to medium copy number plasmid | [40] |
 | pRB3-arcA | derivative of pRB3-273C containing arcA | [38] |
 | pRB3-arcD2A | derivative of pRB3-arcA containing Asp54 → Ala mutation | This study |
Oligonucleotides | Used for | Sequence | |
arcA5KO | mutagenesis of arcA | 5'-tcttatcgttgaagacgagttggtaacacgcaacacgttg aaaagtattttcgaagcggagtgtaggctggagctgcttc-3' | |
arcA3KO | mutagenesis of arcA | 5'-tcttccagatcaccgcagaagcgataaccttcaccgtgaa tggtggcgatgatttccggccatatgaatatcctccttag-3' | |
arcB5KO | mutagenesis of arcB | 5'-gccctcgtcgttcttgccattgtggtacaaatggcggtaaccatggtgct gcatggtcaggtcgaaagcattgatgttatgtgtaggctggagctgcttc-3' | |
arcB3KO | mutagenesis of arcB | 5'-gtggcttttgccacccacgctttcagcacttctacgtcgtgacgccactc ttctttcatctcttcaatccattcaccgaccatatgaatatcctccttag-3' | |
arcB-rev5 | generation of arcB::kan | 5'-cacattaatttttttaataaaaatggtacgcatcacacatttaactgattcatgtaacaa atcatttaagttttgctatcttaactgcgtcatatgaatatcctccttag-3' | |
arcB-rev3 | generation of arcB::kan | 5'-gcgaatactgcgccaacaccagggaaatcttggctgcgccgtaaattattatgatga gttacaagggcacagcactgtttttcaggccgcgtgtaggctggagctgcttc-3' | |
fliC5KO | mutagenesis of fliC | 5'-tcgctgatcactcaaaataatatcaacaagaaccagtctgcgctgtcgag ttctatcgagcgtctgtcttctggcttgcggtgtaggctggagctgcttc-3' | |
fliC3KO | mutagenesis of fliC | 5'-ctgcggtacctggttagcttttgccaacacggagttaccggcctgctgga tgatctgcgctttcgacatattggacacttcatatgaatatcctccttag-3' |