Table 1.
Bacterial strains and plasmids used in this work
| Strain or plasmid | Genotype or relevant characteristicsa | Source and/or referenceb |
|---|---|---|
| Strains | ||
| MG1655 | F− λ−ilvG rph-1 | CGSC 7740 |
| BW25141 | F− λ− Δ(araB-araD)567 ΔlacZ4787(::rrnB-3) Δ(phoB-phoR)580 galU95 ΔuidA3::pir+recA1 ΔendA9::FRTcrph-1 Δ(rhaB-rhaD)568 hsdR514 | CGSC 7635 |
| MDG147 | MG1655 Φ(ompF+-yfp+)30 Φ(ompC+-cfp+)31 | M. D. Goulian, 4 |
| CR701 | ΔtolC::cat | 10 |
| CR702 | ΔtolC::FRT | 10 |
| CR713 | attλ::[kan ompF′-yfp oriR6K] | |
| CR714 | attλ::[kan ompF′-′yfp(hyb) oriR6K] | |
| CR715 | attλ::[kan micF′-yfp oriR6K] | |
| CR716 | ΔmarRAB::kan (1617077–1618231) | |
| CR717 | ΔsoxRS::kan (4275083–4275950) | |
| CR718 | Δrob::cat (4632554–4633393) | |
| CR719 | ΔmicF::kan (2311106–2311203) | |
| CR720 | ΔompR::cat (3533885–3534603) | |
| CR721 | ΔmarRAB::FRT | |
| CR722 | ΔsoxRS::FRT | |
| CR723 | Δrob::FRT | |
| CR724 | ΔmicF::FRT | |
| CR725 | ΔmarRAB::FRT ΔsoxRS::FRT | |
| CR726 | ΔmarRAB::FRT Δrob::FRT | |
| CR727 | ΔsoxRS::FRT Δrob::FRT | |
| CR728 | ΔmarRAB::FRT ΔsoxRS::FRT Δrob::FRT | |
| CR729 | ΔmicF::FRT ΔmarRAB::FRT | |
| CR730 | ΔmicF::FRT Δrob::FRT | |
| CR731 | ΔmicF::FRT ΔmarRAB::FRT Δrob::FRT | |
| CR732 | ΔtolC::FRT ΔmarRAB::FRT | |
| CR733 | ΔtolC::FRT ΔsoxRS::FRT | |
| CR734 | ΔtolC::FRT Δrob::FRT | |
| CR735 | ΔtolC::FRT ΔmarRAB::FRT ΔsoxRS::FRT Δrob::FRT | |
| CR736 | ΔtolC::FRT ΔmicF::FRT | |
| CR737 | ΔmarRAB::FRT attλ::[kan ompF′-yfp oriR6K] | |
| CR738 | ΔsoxRS::FRT attλ::[kan ompF′-yfp oriR6K] | |
| CR739 | Δrob::FRT attλ::[kan ompF′-yfp oriR6K] | |
| CR740 | ΔmicF::FRT attλ::[kan ompF′-yfp oriR6K] | |
| CR741 | ΔmarRAB::FRT ΔsoxRS::FRT attλ::[kan ompF′-yfp oriR6K] | |
| CR742 | ΔmarRAB::FRT Δrob::FRT attλ::[kan ompF′-yfp oriR6K] | |
| CR743 | ΔsoxRS::FRT Δrob::FRT attλ::[kan ompF′-yfp oriR6K] | |
| CR744 | ΔmarRAB::FRT ΔsoxRS::FRT Δrob::FRT attλ::[kan ompF′-yfp oriR6K] | |
| CR745 | ΔmicF::FRT ΔmarRAB::FRT attλ::[kan ompF′-yfp oriR6K] | |
| CR746 | ΔmicF::FRT Δrob::FRT attλ::[kan ompF′-yfp oriR6K] | |
| CR747 | ΔmicF::FRT ΔmarRAB::FRT Δrob::FRT attλ::[kan ompF′-yfp oriR6K] | |
| CR748 | ΔtolC::FRT attλ::[kan ompF′-yfp oriR6K] | |
| CR749 | ΔtolC::FRT ΔmarRAB::FRT attλ::[kan ompF′-yfp oriR6K] | |
| CR750 | ΔtolC::FRT ΔsoxRS::FRT attλ::[kan ompF′-yfp oriR6K] | |
| CR751 | ΔtolC::FRT Δrob::FRT attλ::[kan ompF′-yfp oriR6K] | |
| CR752 | ΔtolC::FRT ΔmarRAB::FRT ΔsoxRS::FRT Δrob::FRT attλ::[kan ompF′-yfp oriR6K] | |
| CR753 | ΔtolC::FRT ΔmicF::FRT attλ::[kan ompF′-yfp oriR6K] | |
| CR754 | ΔmarRAB::FRT attλ::[kan ompF′-′yfp(hyb) oriR6K] | |
| CR755 | ΔsoxRS::FRT attλ::[kan ompF′-′yfp(hyb) oriR6K] | |
| CR756 | Δrob::FRT attλ::[kan ompF′-′yfp(hyb) oriR6K] | |
| CR757 | ΔmicF::FRT attλ::[kan ompF′-′yfp(hyb) oriR6K] | |
| CR758 | ΔmarRAB::FRT ΔsoxRS::FRT attλ::[kan ompF′-′yfp(hyb) oriR6K] | |
| CR759 | ΔmarRAB::FRT Δrob::FRT attλ::[kan ompF′-′yfp(hyb) oriR6K] | |
| CR760 | ΔsoxRS::FRT Δrob::FRT attλ::[kan ompF′-′yfp(hyb) oriR6K] | |
| CR761 | ΔmarRAB::FRT ΔsoxRS::FRT Δrob::FRT attλ::[kan ompF′-′yfp(hyb) oriR6K] | |
| CR762 | ΔmicF::FRT ΔmarRAB::FRT attλ::[kan ompF′-′yfp(hyb) oriR6K] | |
| CR763 | ΔmicF::FRT Δrob::FRT attλ::[kan ompF′-′yfp(hyb) oriR6K] | |
| CR764 | ΔmicF::FRT ΔmarRAB::FRT Δrob::FRT attλ::[kan ompF′-′yfp(hyb) oriR6K] | |
| CR765 | ΔtolC::FRT attλ::[kan ompF′-′yfp(hyb) oriR6K] | |
| CR766 | ΔtolC::FRT ΔmarRAB::FRT attλ::[kan ompF′-′yfp(hyb) oriR6K] | |
| CR767 | ΔtolC::FRT ΔsoxRS::FRT attλ::[kan ompF′-′yfp(hyb) oriR6K] | |
| CR768 | ΔtolC::FRT Δrob::FRT attλ::[kan ompF′-′yfp(hyb) oriR6K] | |
| CR769 | ΔtolC::FRT ΔmarRAB::FRT ΔsoxRS::FRT Δrob::FRT attλ::[kan ompF′-′yfp(hyb) oriR6K] | |
| CR770 | ΔtolC::FRT ΔmicF::FRT attλ::[kan ompF′-′yfp(hyb) oriR6K] | |
| CR771 | ΔmarRAB::FRT attλ::[kan micF′-yfp oriR6K] | |
| CR772 | ΔsoxRS::FRT attλ::[kan micF′-yfp oriR6K] | |
| CR773 | Δrob::FRT attλ::[kan micF′-yfp oriR6K] | |
| CR774 | ΔmicF::FRT attλ::[kan micF′-yfp oriR6K] | |
| CR775 | ΔmarRAB::FRT ΔsoxRS::FRT attλ::[kan micF′-yfp oriR6K] | |
| CR776 | ΔmarRAB::FRT Δrob::FRT attλ::[kan micF′-yfp oriR6K] | |
| CR777 | ΔsoxRS::FRT Δrob::FRT attλ::[kan micF′-yfp oriR6K] | |
| CR778 | ΔmarRAB::FRT ΔsoxRS::FRT Δrob::FRT attλ::[kan micF′-yfp oriR6K] | |
| CR779 | ΔmicF::FRT ΔmarRAB::FRT attλ::[kan micF′-yfp oriR6K] | |
| CR780 | ΔmicF::FRT Δrob::FRT attλ::[kan micF′-yfp oriR6K] | |
| CR781 | ΔmicF::FRT ΔmarRAB::FRT Δrob::FRT attλ::[kan micF′-yfp oriR6K] | |
| CR782 | ΔtolC::FRT attλ::[kan micF′-yfp oriR6K] | |
| CR783 | ΔtolC::FRT ΔmarRAB::FRT attλ::[kan micF′-yfp oriR6K] | |
| CR784 | ΔtolC::FRT ΔsoxRS::FRT attλ::[kan micF′-yfp oriR6K] | |
| CR785 | ΔtolC::FRT Δrob::FRT attλ::[kan micF′-yfp oriR6K] | |
| CR786 | ΔtolC::FRT ΔmarRAB::FRT ΔsoxRS::FRT Δrob::FRT attλ::[kan micF′-yfp oriR6K] | |
| CR787 | ΔtolC::FRT ΔmicF::FRT attλ::[kan micF′-yfp oriR6K] | |
| CR788 | MDG147 ΔmarRAB::kan | |
| CR789 | MDG147 Δrob::cat | |
| CR790 | MDG147 ΔmarRAB::kan Δrob::cat | |
| Plasmids | ||
| pKD46 | bla PBADgam bet exo pSC101 ori(ts) | 15 |
| pCP20 | bla cat cI857 λPR′-flp pSC101 ori(ts) | 8 |
| pKD3 | bla rgnB FRT cat FRT oriR6K | 15 |
| pKD4 | bla rgnB FRT aph FRT oriR6K | 15 |
| pKD13 | bla rgnB FRT aph FRT oriR6K | 15 |
| pBAD30 | bla araC PBAD p15A ori | 24 |
| pMarA | pBAD30::RBS-marA | |
| pRob | pBAD30::RBS-rob | |
| pVenus | kan MCS yfp(venus) t0 attλ oriR6K | 52 |
| pVenus-ompF | kan MCS ompF′-yfp(venus) t0 attλ oriR6K | |
| pVenus-FY | kan MCS ompF′-′yfp(venus)(hyb) t0 attλ oriR6K | |
| pVenus-micF | kan MCS micF′-yfp(venus) t0 attλ oriR6K |
a
All strains are isogenic derivatives of E. coli K-12 strain MG1655. Numbers in parentheses indicate deletion endpoints as determined using the MG1655 genome sequence.
b
All strains and plasmids are from this work unless otherwise noted.
c
FRT, FLP recombination target.