Table 1.
Bacterial strains and plasmids
| Name | E. coli Stains | Genotype | Sources |
|---|---|---|---|
| SF1 | MG1655 : 7 rrn (WT) | rph-1λ– | |
| SF2 | 1 rrnC | rph-1λ–Δ(rrsH-aspU)794::FRT Δ(rrfG-rrsG)791::FRT Δ(rrfF-rrsD)793::FRT Δ(rrsA-rrfA)792::FRT Δ(rrsB-rrfB)790::FRT Δ(rrsE-rrfE)789::FRT [ptRNA67] = p15a aadA | (33) |
| SF3 | 1 rrnE | rph-1λ–Δ(rrsH-aspU)794::FRT Δ(rrfG-rrsG)791::FRT Δ(rrfD-rrsD)793::FRT Δ(rrsC-trpT)795::FRT Δ(rrsA-rrfA)792::FRT Δ(rrsB-rrfB)790::FRT [ptRNA67] = p15a aadA | (33) |
| SF4 | 2 rrnC rrnD | SF2 but rrnD+ | This study |
| SF5 | 2 rrnC rrnB | rph-1λ–Δ(rrsH-aspU)794::FRT Δ(rrfG-rrsG)791::FRT Δ(rrfF-rrsD)793::FRT Δ(rrsA-rrfA)792::FRTΔ(rrsE-rrfE)789::FRT [ptRNA67] = p15a aadA | (33) |
| SF6 | 1 rrnD | SF4 but Δ(rrsC-trpT)795::FRT | This study |
| SF7 | 3 rrn | rph-1λ–Δ(rrfG-rrsG)791::FRT Δ(rrfF-rrsD)793::FRT Δ(rrsA-rrfA)792::FRT Δ(rrsB-rrfB)790::FRT | (33) |
| SF8 | 4 rrn | rph-1λ–Δ(rrfG-rrsG)791::FRTΔ(rrsA-rrfA)792::FRT Δ(rrsB-rrfB)790::FRT | (33) |
| SF9 | 5 rrn | rph-1λ–Δ(rrsE-rrfE)789::FRT, Δ(rrfG-rrsG)791::FRT | (33) |
| SF10 | 6 rrn | rph-1λ–Δ(rrsE-rrfE)785(::FRT) | (33) |
| SF11 | 8 rrn | rph-1λ–+ rrnB(araC)71267 | (18) |
| SF12 | 9 rrn | rph-1λ–+ rrnB (araC)71267, rrnB(yibF)3761992 | (18) |
| SF13 | 10 rrn | rph-1λ–+ rrnB(araC)71267, rrnB(yibF)3761992, rrnB (mocA) 3015910 | (18) |
| SF14 | dnaA(Sx) | as SF1 but dnaA(Sx) 721 zib::Tn10 | Thisstudy,(72) |
| SF15 | 1 rrnC dnaA(Sx) | as SF2 but dnaA(Sx) 721 zib::Tn10 | This study, (72) |
| SF16 | ΔdinG | as SF1 but ΔdinG:: kan | This studya |
| SF17 | 1 rrnC ΔdinG | as SF2 but ΔdinG:: kan | This studya |
| SF18 | ΔgreA | as SF1 but ΔgreA:: kan | This studya |
| SF19 | 1 rrnC ΔgreA | as SF2 but ΔgreA :: kan | This studya |
| SF20 | ΔhflX | as SF1 but dnaA(Sx) 721 zib::Tn10 | This study |
| SF21 | 1rrnC ΔhflX | as SF2 but dnaA(Sx) 721 zib::Tn10 | This study |
| SF22 | lexA1 (Ind–) | as SF1 but lexA1 malB::Tn9 | This study |
| SF23 | 1 rrnC lexA1 (Ind–) | as SF2 but lexA1 malB::Tn9 | This study |
| SF24 | lexA (Def) ΔsulA | as SF1 but lexA:: kanΔsulA | This studya |
| SF25 | 1 rrnC lexA (Def) ΔsulA | as SF2 but lexA:: kan ΔsulA | This studya |
| SF26 | Δmfd | as SF1 but Δmfd :: kan | This studya |
| SF27 | 1 rrnC Δmfd | as SF2 but Δmfd :: kan | This studya |
| SF28 | Δmfd rnh + | as SF26 + pACYC184-rnh | This study |
| SF29 | 1 rrnC Δmfd rnh + | as SF27 + pACYC184-rnh | This study |
| SF30 | Δmfd uvsW + | as SF26 but Δ(argF-lac)U169 Ptac-uvsW-amp | This study |
| SF31 | 1 rrnC Δmfd uvsW + | as SF27 but Δ(argF-lac)U169 Ptac-uvsW-amp | This study |
| SF32 | nusG F165A | as SF1 but nusGF165A:: kan | Thisstudy,(52) |
| SF33 | 1 rrnC nusGF165A | as SF2 but nusGF165A:: kan | This study, (52) |
| SF34 | nusG F165A rpoC* | as SF32 but rpoCΔ215–220 thiC::tn10 | Thisstudy, (73) |
| SF35 | nusG F165A rnh+ | as SF32 + pACYC184-rnh | This study |
| SF36 | ΔrapA | as SF1 but ΔrapA :: kan | This studya |
| SF37 | 1 rrnC ΔrapA | as SF2 but ΔrapA :: kan | This studya |
| SF38 | ΔrecA | as SF1 but ΔrecA :: kan | This studya |
| SF39 | 1 rrnC ΔrecA | as SF2 but ΔrecA :: kan | This studya |
| SF40 | ΔrecA rnh+ | as SF38 + pACYC184-rnh | This study |
| SF41 | 1 rrnC ΔrecA rnh+ | as SF39 + pACYC184-rnh | This study |
| SF42 | ΔrecA uvsW + | as SF38 butΔ(argF-lac)U169 Ptac-uvsW-amp | This study |
| SF43 | 1 rrnC ΔrecA uvsW + | as SF39 butΔ(argF-lac)U169 Ptac-uvsW-amp | This study |
| SF44 | ΔrecB | as SF1 but ΔrecB :: kan | This studya |
| SF45 | 1 rrnC ΔrecB | as SF2 but ΔrecB :: kan | This studya |
| SF46 | ΔrecF | as SF1 but ΔrecF :: kan | This studya |
| SF47 | 1 rrnC ΔrecF | as SF2 but ΔrecF :: kan | This studya |
| SF48 | ΔrecQ | as SF1 but ΔrecQ :: kan | This studya |
| SF49 | 1 rrnC ΔrecQ | as SF2 but ΔrecQ :: kan | This studya |
| SF50 | Δrep | as SF1 but Δrep :: kan | This studya |
| SF51 | 1 rrnC Δrep | as SF2 but Δrep :: kan | This studya |
| SF52 | rnh+ | as SF1 + pACYC184-rnh | This study |
| SF53 | 1 rrnC rnh+ | as SF2 + pACYC184-rnh | This study |
| SF54 | ΔrnhA | as SF1 but ΔrnhA :: kan | This studya |
| SF55 | 1 rrnC ΔrnhA | as SF2 but ΔrnhA :: kan | This studya |
| SF56 | ΔrnhA uvsW + | as SF54 but Δ(argF-lac)U169 Ptac-uvsW-amp | This study |
| SF57 | 1 rrnC ΔrnhA uvsW + | as SF55 but Δ(argF-lac)U169 Ptac-uvsW-amp | This study |
| SF58 | rpoC* | as SF1 but rpoCΔ215–220 thiC::tn10 | This study |
| SF59 | 1 rrnC rpoC* | as SF2 but rpoCΔ215–220 thiC::tn10 | This study |
| SF60 | ΔruvA | as SF1 but ΔruvA :: kan | This studya |
| SF61 | 1 rrnC ΔruvA | as SF2 but ΔruvA :: kan | This studya |
| SF62 | ΔuvrD | as SF1 but ΔuvrD:: kan | This studya |
| SF63 | 1 rrnC ΔuvrD | as SF2 but ΔuvrD:: kan | This studya |
| SF64 | uvsW + | as SF1 but Δ(argF-lac)U169 Ptac- uvsW -amp | Thisstudy, (74) |
| SF65 | 1 rrnC uvsW + | as SF2 but Δ(argF-lac)U169 Ptac- uvsW -amp | This study |
| SF66 | 1 rrn P1rrnB- gfp | as SF2 but attB::P1rrnB- gfpASV | Thisstudy, (27) |
| SF67 | 2 rrn P1rrnB- gfp | as SF5 but attB:: P1rrnB- gfpASV | This study |
| SF68 | 3 rrn P1rrnB- gfp | as SF7 but attB:: P1rrnB- gfpASV | This study |
| SF69 | 4 rrn P1rrnB- gfp | as SF8 but attB:: P1rrnB- gfpASV | This study |
| SF70 | 5 rrn P1rrnB- gfp | as SF9 but attB:: P1rrnB- gfpASV | This study |
| SF71 | 6 rrn P1rrnB- gfp | as SF10 but attB:: P1rrnB- gfpASV | This study |
| SF72 | 7 rrn P1rrnB- gfp | as SF1 but attB:: P1rrnB- gfpASV | This study |
| SF73 | 8 rrn P1rrnB- gfp | as SF11 but attB:: P1rrnB- gfpASV | This study |
| SF74 | 9 rrn P1rrnB- gfp | as SF12 but attB:: P1rrnB- gfpASV | This study |
| SF75 | 10 rrn P1rrnB- gfp | as SF13 but attB::P1rrnB- gfpASV | This study |
| SF76 | 7 rrn P1rrnB- gfp rpoC* | as SF72 but rpoCΔ215–220 thiC::tn10 | |
| SF77 | 1 rrn P1rrnB- gfp rpoC* | as SF66 but rpoCΔ215–220 thiC::tn10 | This study |
| SF78 | 1 rrn PrecA-yfp | as SF2 but intC::PrecA-yfp-cm | This study |
| SF79 | 2 rrn PrecA-yfp | as SF5 but intC::PrecA-yfp-cm | This study |
| SF80 | 3 rrn PrecA-yfp | as SF7 but intC::PrecA-yfp-cm | This study |
| SF81 | 4 rrn PrecA-yfp | as SF8 but intC::PrecA-yfp-cm | This study |
| SF82 | 5 rrn PrecA-yfp | as SF9 but intC::PrecA-yfp-cm | This study |
| SF83 | 6 rrn PrecA-yfp | as SF10 but intC::PrecA-yfp-cm | This study |
| SF84 | 7 rrn PrecA-yfp | as SF1 but intC::PrecA-yfp-cm | This study |
| SF85 | 8 rrn PrecA-yfp | as SF11 but intC::PrecA-yfp-cm | This study |
| SF86 | 9 rrn PrecA-yfp | as SF12 but intC::PrecA-yfp-cm | This study |
| SF87 | 10 rrn PrecA-yfp | as SF13 but intC::PrecA-yfp-cm | This study |
| SF88 | 1 rrn PrecA-yfp lexA1 (Ind–) | as SF78 but SF22 | This study |
| SF89 | 7 rrn PrecA-yfp lexA1 (Ind–) | as SF84 but SF22 | This study |
| SF90 | 1 rrn PrpsT-gfp | as SF2 but SF101 | This study |
| SF91 | 7 rrn PrpsT-gfp | as SF1 but SF101 | This study |
| SF92 | MG1655 Pbla-gfp | as SF1 but galK::Pbla-gfp-cm | Lab collection |
| SF93 | 1 rrn Pbla-gfp | as SF2 but SF92 | This study |
| SF94 | 7 rrn Pbla-gfp | as SF1 but SF92 | This study |
| SF95 | 1 rrn pK4-16 | as SF2 but SF102 | This study |
| SF96 | 7 rrn pK4-16 | as SF1 but SF102 | This study |
| Name | B.subtilis Stains | Genotype | Sources |
| SF97 | 10 rrn | trpC2 | (75) |
| SF98 | 1 rrn | trpC2 ΔrrnHG1 ΔrrnO1 ΔrrnD1 ΔrrnE1 ΔrrnB2 ΔrrnI2 ΔrrnW2 ΔrrnJ1::cat (Δ9 rrnA+) | (75) |
| Plasmids | |||
| SF99 | DH5alpha pCP20 | Δ(argF-lac)169, phi80dlacZ58 (M15), glnV44(AS), λ–, rfbD1, gyrA96 (NalR), recA1, endA1, spoT1, thi-1, hsd | (76) |
| SF100 | P rnh+ | [pEM001] = pACYC184-rnh | (66) |
| SF101 | P rpsT | Promoter specific GFP - kan | (26) |
| SF102 | pK4-16 | pSC101 ori, rrnB - kan | (33) |
aDerivative strains were constructed using P1 transduction of alleles from Keio collection (Baba et al., 2006).