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Base Strains | ||||||||||
Name | Genotype / Phenotype | Features | Resistances | Auxotrophies | Non-utilizations | |||||
|---|---|---|---|---|---|---|---|---|---|---|
| MG1655 | str. K-12 F– λ– ilvG – rfb-50 rph-1 fnr? | Prototypical K-12 strain. Valine toxicity in absence of isoleucine, due to ilvG frameshift. Partial pyrimidine starvation from polar effects of rph-1 on pyrE causes 9–13% slower growth in minimal medium. Slow growth in M9 galactose (t d=200–300 min) Some strain variants have an fnr deletion that causes defects in anaerobic respiration. P1 phage susceptible due to IS in rfb O-antigen biosythesis gene cluster. genome, allele variations, allele table, MG1655 physiology Genome paper (old), paper (new). Genome. BioCyc . Allele variations. Allele table. MG1655 physiology. | — | — | — | |||||
| NEB Turbo | str. K-12 F′[ traD36 proA B + lacIq lacZΔM15 fhuA2] glnV44(supE44) thi-1 Δ(lac-proAB) galE15 galK16 R(zgb-210::Tn10)TetS endA1 Δ(hsdS-mcrB)5 (rK– mK–) = str. K-12 TG1[JM101 Δ(hsdS-mcrB )5 (rK– mK–)] endA1] | endonuclease I-deficient (endA1). lacI q. Exceptional competence (galE –). Amber suppressor UAG>CAG(Gln). T1 phage resistant. Blue/white-screening with lacZα . Non-conjugative F′ (traD36). Parent: TG1. Grandparent: JM101. Genome. | Nit R 2dGalR | Thiamine | Galactose, Lactose | |||||
DH10B (Invitrogen) = TOP10 (Thermo) ≈ NEB 10-beta (NEB) | str. K-12 F– Δ(ara-leu)7697 Δ(rapA'-cra')] Δ(lac)X74[Δ('yahH-mhpE)] duplicationDUP(514341-627601)[nmpC-gltI] galK16 galE15 e14 –(icd WT mcrA) φ80dlacZΔM15 recA1 relA1 endA1 Tn10.10 nupG rpsL150(StrR) rph + spoT1 Δ(mrr-hsdRMS-mcrBC)(rK– mK–) λ– NEB 10-beta: [DH10B fhuA] | Recombination-deficient. Relaxed. Endonuclease I-deficient. lacI q. Clones large plasmids. Exceptional competence (galE –). Blue/white-screening with lacZα. Improved cloning 5-mC DNA. P1 phage-resistance. Parent: MC1061 Tandem duplication of genes b0553–b0655; double gene dosage. Genome paper. Genome. BioCyc. | StrR 2dGalR | Leucine | Arabinose, Lactose, Galactose | |||||
| NEB Stable | str. K-12 DH10B ( NEB 10-beta ) F'[proAB lacIq Δ(lacZ)M15 zzf::Tn10 (TetR)] | Shown to exceed performance of Stbl3 in maintenance of repetitive DNAs. Reported genotype is identical to DH10B except with additional tetracycline- and T1 phage-resistances. | Str R TetR 2dGalR | Leucine | Arabinose, Lactose, Galactose | |||||
| DH5α ≈ NEB 5-alpha | str. K-12 F– endA1 glnV44(supE44) thi-1 recA1 relA1 gyrA96(NalR) nupG purB20 φ80dlacZΔM15 Δ(lacZYA-argF)U169 hsdR17(rK– mK+) λ– NEB 5-alpha: [DH5α fhuA] | Recombination- Recombination-deficient. Relaxed. Endonuclease I-deficient. Clones large plasmids. Amber suppressor UAG>CAG(Gln). Slow growth in M9 from purB-20. Blue/white-screening with lacZα. Methylates EcoKI sites. | NalR | Thiamine | Lactose | |||||
| Mach1 | str. W ΔrecA1398 endA1 fhuA φ80d lacZ ΔM15 Δ(lac)X74 hsdR(rK – mK +) | Recombination-deficient. Endonuclease I-deficient. lacI –. Blue/ white-screening with lacZα . T1/T5/Φ80 phage-resistant. Blue/white-screening with lacZα . Derivative of str. W (ATCC 9637). Patent: construction/ propertieproperties. Genome .Genome paper(str. W parent). BioCyc. | Lactose | |||||||
| BW25113 | str. K-12 F– Δ(araD-araB)567 ΔlacZ4787(::rrnB-3) λ– rph-1 Δ(rhaD-rhaB)568 hsdR514(rK– mK+) | lacI + Keio collection background. Parent: BD792 Genome paper. Genome. BioCyc. | Arabinose, Rhamnose, Lactose | |||||||
| DB3.1 | str. K-12 F– gyrA462(CcdBR) endA1 glnV44 Δ(sr1-recA) mcrB mrr hsdS20(rB– mB–) araC14 galK2 lacY1 Δ(gpt-proA)62 rpsL20(StrR) xylA5 leuB6(Am) mtl-1 lacI– ? | CcdB-resistant by gyrase mutation, not CcdA. Recombination-deficient. Endonuclease I-deficient. Amber suppressor UAG>CAG(Gln). Parent: HB101. | CcdBR StrR 2dGalR | Proline, Leucine | Galactose, Lactose, Xylose, Mannitol, Arabinose? | |||||
| OmniMAX2 | str. K-12 F′[proABproAB+ lacI q lacZΔM15 Tn10(TetR) ΔccdAB] mcrA Δ(mrr-hsdRMS-mcrBC)(rK– mK–) φ80dlacZΔ M15 Δ(lacZYA-argF)U169 endA1 thi-1 recA1 relA1 gyrA96 (NalR) fhuA2 panD | CcdB-hypersensitive. T1/T5/Φ80 phage resistant. Recombination-deficient. Relaxed. Endonuclease I-deficient. Clones large plasmids. Amber suppressor UAG>CAG(Gln). Blue/white-screening with lacZα. | TetR NalR | Thiamine, Pantothenate | Lactose | |||||
| BW29655 | str. K-12 F– Δ( araD-araBaraBAD)567 ΔlacZ4787(::rrnB-3) λ– Δ(envZ-ompR)520(::FRT) Δ( rhaD-rhaBrhaBAD)568 hsdR514(rK– mK+) rph -1?+ =str. K-12 BW25113 rph+ Δ(envZ-ompR)520(::FRT) | lacI +. Base strain for refactored light systems. Described in this study.lacI + | Arabinose, Lactose, Rhamnose | |||||||
| XL1-Blue | str. K-12 recA1 endA1 gyrA96(NalR) thi-1 hsdR17 glnV44(supE44) relA1 lac F′[proAB+ lacI q lacZΔM15 Tn10(TetR)] | Recombination-deficient. Relaxed. Endonuclease I-deficient. lacI q. Amber suppressor UAG>CAG(Gln). Blue/white-screening with lacZα. | TetR NalR | Thiamine | ||||||
| NEB dam – /dcm – | str. K-12 ara-14 leuB6(Am) fhuA31 lacY1 tsx78 glnV44(supE44) galK2 galT22 mcrA dcm6 hisG4 rfbD1 R(zgb210::Tn10(TetS) endA1 rspL136(StrR) dam13::Tn9(ChlR) xylA5 mtl-1 thi-1 mcrB1 hsdR2 | Host for isolating plasmids free of Dam/Dcm methylation for transformation into methylation-sensitive hosts. Increased mutation rate as a side-effect. Endonuclease I-deficient. T1/T5/Φ80/T6 phage-resistant. Amber suppressor UAG>CAG(Gln). Low but noticeable frequency of KanR mutations. ColE1 replicons are suppressed in dam– strains. | ChlR StrR NitR CkaR 2dGalR | Thiamine, Histidine | Galactose, Xylose, Arabinose, Mannitol | |||||
| ET12567 (ATCC BAA-525)? | Host for isolating plasmids for transformation into Streptomyces or any other organism that has a methylation-sensitive restriction system. | ? | ? | ? | EC100D | str. K-12 F – mcrA Δ(mrr-hsdRMS-mcrBC) φ80dlacZΔM15 Δ(lac)X74 [Δ('yahH-mhpE)] recA1 endA1 araD139 Δ(ara-leu)7697 galU galK λ– rpsL(StrR) deoR(?) pir+(folA TmpR) | Can replicate conditional R6Kγ origin plasmids using genomic pir. | StrR TmpR 2dGalR | Galactose, Lactose, Arabinose | |
| Marionette-Clo | sAJM.1504 [str. DH10B glvC::(Marionette cluster)(ChlR)] | DH10B with Marionette transcription factor cluster. | low ChlR, 5 mg/L | Leucine | Arabinose, Lactose, Galactose | |||||
| Marionette-Pro | sAJM.1505 [str. BL21 glvC::(Marionette cluster)(ChlR)] | BL21 with Marionette transcription factor cluster. | low ChlR, 5 mg/L | |||||||
dam-13::Tn9(ChlR) dcm-6 hsdM hsdR zjj(opgB)-202::Tn10(TetR) recF143 galK2 galT22 ara-14 lacY1 xyl-5 leuB6 thi-1 tonA31 rpsL136(StrR) hisG4 tsx-78 mtl-1 glnV44 | Host for isolating plasmids for transformation into Streptomyces or other organisms that have E. coli methylation-sensitive restriction systems. UV-sensitive (recF). ColE1 replicons are suppressed in dam – strains. Phage T6 and ColK-resistant (tsx). Amber suppressor UAG>CAG(Gln). | Chl R Str R Tet R | Leucine, Thiamine, Histidine | Arabinose, Galactose, Mannitol | ||||||
| EC100D | str. K-12 F– mcrA Δ(mrr-hsdRMS-mcrBC) φ80dlacZΔM15 Δ( lac ) X74 [Δ('yahH-mhpE)] recA1 endA1 araD139 Δ( ara-leu) 7697 galU galK λ– rpsL (StrR) deoR(?) pir+ (folA TmpR) | Pir+: Replicates conditional R6Kγ origin plasmids using genomic pir at medium copy ≈15. | StrR TmpR 2dGalR | Galactose, Lactose, Arabinose | ||||||
| BW25141 | Δ(araD-araB)567 ΔlacZ4787 (::rrnB-3) Δ(phoB-phoR)580 λ– galU95 ΔuidA3::pir+ recA1 ΔendA9 ::FRT rph-1 Δ(rhaD-rhaB)568 hsdR514 (rK– mK+) | Pir +: Replicates conditional R6Kγ origin plasmids using genomic pir at medium copy ≈15. Deletion of phoBR. | Arabinonse, Rhamnose, Lactose | |||||||
| BW23474 | Δ(argF-lac)169 ΔuidA4::pir-116 recA1 rpoS396(Am) ΔendA9::FRT rph-1 hsdR514 (rK– mK+) rob-1 creC510 | Pir +: Replicates conditional R6Kγ origin plasmids using genomic pir-116 at high copy. Recombination-deficient. Endonuclease I-deficient. CGSC. | Lactose | |||||||
| Marionette-Clo | sAJM.1504 [str. DH10B glvC ::(Marionette cluster)(Chl R )] | DH10B with Marionette transcription factor cluster. | low Chl R , 5 mg/L | Leucine | Arabinose, Lactose, Galactose | |||||
| Marionette-Pro | sAJM.1505 [str. BL21 glvC ::(Marionette cluster)(Chl R )] | BL21 with Marionette transcription factor cluster . (no DE3 and T7 RNAP.) | low Chl R , 5 mg/L | |||||||
| Marionette-Wild | sAJM.1504 [str. K-12 MG1655 glvC::(Marionette | Marionette-Wild | sAJM.1504 [str. K-12 MG1655 glvC::(Marionette cluster)(ChlR)] | MG1655 with Marionette transcription factor cluster . | low ChlR, 5 mg/L | |||||
| BL21(DE3) | str. B F– ompT gal dcm lon hsdSB (rB– mB–) λ(DE3[lacI lacUV5-T7p07 ind1 sam7 nin5]) [malB +]K-12(λS) | lac-inducible T7 RNAP. proteases–. dcm–T7 RNAP. proteases–. dcm– . | Galactose | |||||||
| Rosetta™(DE3)pLysS (Novagen) | str. B BL21(DE3) pLysSRARE[T7p20 ileX argU thrU tyrU glyT thrT argW metT leuW proL cat ori p15A](ChlR) | lac-inducible T7 RNAP. proteases–. dcm–. pLysSRARE Expresses rare-codon tRNA Arg, Ile, Gly, Leu, Pro : argU(AGG, AGA), ileX(AUA), leuW(CUA), proL(CCC), glyT(GGA), in addition to T7 lysozyme, with a p15A ori. T7 lysozyme reduces T7 RNAP background activity and facilitates lysis. | ChlR | Galactose | ||||||
| BLIM | str. B BL26 Blue F– ompT hsdS(rB– mB+ ) gal dcm lac T1R Parent strain BL26 Blue additionally had F′[proAB lacI q lacZΔM15 ::Tn10(TetR)] | Parent strain BL26 Blue (Novagen) was cured of F plasmid and made T1 phage-resistant, according to source. | Proline? | Galactose, Lactose | ||||||
| BioDesignER (RE1000) | str. K-12 MG1655 ilvG+ ΔbioAB::λred[PN25-tetR PtetO2-gam-bet-exo-dam] SS7::cymR q PCP8-araE Pcon-araC ΔaraBAD lacI q1 dnaG Q576A ΔrecJ ΔsbcB | TetR-controlled recombination system. Mutations to stabilize ssDNA. Constitutive lacI, araC, tetR, cymR. Linear ara induction from constitutive araE. Faster minimal media growth from ilvG+. | Biotin | Arabinose | ||||||
| Nissle 1917 | pMUT1[ori ColE1] pMUT2[ori ColE2] | Wild strain used as a probiotic. Has native ColE1 and ColE2 plasmids. History. Nissle engineering. | DGF-298 | str. K-12 W3110, Δ(recC ptr recB recD)::Plac-bet-exo(KanR) ilvG+ rph+ Δ(hella shit) | 35% reduced genome ( 2.98 Mbp from WT 4.6 Mbp). 3.62 Mbp parent strain | ? | ||||
Shyam Can Obtain: | |||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Name | Genotype / Phenotype | Features | Resistances | Auxotrophies | Non-utilizations | ||||||||||
| DH1 | str. K-12 F– λ– endA1 recA1 relA1 gyrA96(NalR) thi-1 glnV44(supE44) hsdR17(rK – mK –) | Recombination-deficient. Relaxed. Endonuclease I-deficient. Efficient 40–60kb plasmid transformer. Amber suppressor UAG>CAG(Gln). DH5α parent | NalR | Thiamine | |||||||||||
| JM109 | str. K-12 endA1 recA1 relA1 gyrA96(NalR) thi-1 glnV44(supE44) Δ(lac-proAB) hsdR17(rK – mK +) F′ [traD36 proAB + lacI q lacZΔM15] | Recombination-deficient. Relaxed. Endonuclease I-deficient . Amber suppressor UAG>CAG(Gln). Blue/ white-screening with lacZα . | NalR | Thiamine | BL21(DE3) pLysS | str. BL21(DE3) pLysS[T7p20 ori p15A](ChlR) | lac -inducible T7 RNAP. proteases–. dcm–. pLysS encodes T7 lysozyme, inhibitor of T7 polymerase, which almost eliminates expression from uninduced T7 promoter. | ChlR | ] | Recombination-deficient. Relaxed. Endonuclease I-deficient. Amber suppressor UAG>CAG(Gln). Blue/ white-screening with lacZα . | NalR | Thiamine | Galactose | ||
| BLR(DE3) (Novagen®) | str. B F– ompT hsdSB (rK – mB –) gal dcm (DE3) Δ(srl-recA)306::Tn10 (TetR) | lac -inducible T7 RNAP. protease OmpT–. Recombination-deficient. dcm–. | TetR | Galactose | |||||||||||
| BLR(DE3) pRIL (Novagen®) | str. B F– ompT hsdSB (rK – mB –) gal dcm λ(DE3 [ lacI lacUV5-T7p07 ind1 sam7 nin5]) Δ(srl-recA)306::Tn10 (TetR) pRIL[argU ileY leuW ori p15A ](ChlR) | lac -inducible T7 RNAP. protease OmpT–. Recombination-deficient. dcm–. pRIL overexpresses rare-codon tRNAArg, Ile, Leu argU (AGA, AGG), ileY (AUA), leuW (CUA) from a p15A replicon. | ChlR TetR | Galactose | |||||||||||
| DP10 | str. DH10B Δ(araFGH) φ(ΔaraEp Pcp8-araE(araE q) | Deletion of Arabinose consumption genes. Constitutive araE. Others, see DH10B. | StrR | Leucine | Arabinose, Lactose | ||||||||||
| RU1012 | str. MH215[MH70[MC4100 [F– [araD139]B/r Δ( lacZYA-argF )U169 e14– flhD5301 Δ(fruK-yeiR)725(fruA25) relA1 rpsL150(StrR) rbsR22 Δ(fimB-fimE)632::IS1 deoC1 λ–] malQ7] Φ(ompC-lacZ)10-25] ΔenvZ::KanR | Relaxed | StrR KanR | Lactose, Fructose | |||||||||||
| JTK165JJ (DIAL strain) | str. MC1061 Δupp:(pir dhfr(TmpR)) Δ(rfbB–wbbL)::repA 1) Δupp::(Pcon(BBa_J23100)-rbs(?)-pir-BBa_B0015(rrfBt-T7_TE) - FRT - Pcon(BBa_J23119)-4krbs-dhfr (TmpR)-tR2 - FRT) 2) Δ(rfbB–wbbL')::(Pcon(BBa_J23119)-rbs(?)-repA-BBa_B0015(rrfBt-T7_TE) - FRT) | relaxed. lacI –. Propagates R6K and ColE2 replicons. Improved cloning 5-mC DNA. | StrR TmpR | Leucine | Galactose, Lactose, Arabinose | ||||||||||
| BW27783 | str. K-12 BW25113 F– λ– Δ(araD-araB)567 ΔlacZ4787(::rrnB-3) Δ(araH-araF)570(::FRT) ΔaraEp-532::FRT φPcp8-araE535 rph-1 Δ(rhaD-rhaB)568 hsdR514 | Constitutive araE (ara transporter) expression, expanding dynamic range of araBp (PBAD) induction. | Arabinose, Rhamnose, Lactose | ||||||||||||
| BBa_J23119)-4krbs-dhfr (TmpR)-tR2 - FRT) 2) Δ(rfbB–wbbL')::(Pcon(BBa_J23119)-rbs(?)-repA-BBa_B0015(rrfBt-T7_TE) - FRT) | relaxed. lacI –. Propagates R6K and ColE2 replicons. Improved cloning 5-mC DNA. | StrR TmpR | Leucine | Galactose, Lactose, Arabinose | |||||||||||
| BW27783 | str. K-12 BW25113 F– λ– Δ(araD-araB)567 ΔlacZ4787(::rrnB-3) Δ(araH-araF)570(::FRT) ΔaraEp-532::FRT φPcp8-araE535 rph-1 Δ(rhaD-rhaB)568 hsdR514 | Constitutive araE (ara transporter) expression, expanding dynamic range of araBp (PBAD) induction. | Arabinose, Rhamnose, Lactose | ||||||||||||
| DGF-298 | str. K-12 W3110, Δ (recC ptr recB recD) ::P lac - bet - exo (Kan R ) ilvG + rph + Δ(hella shit) | 35% reduced genome (2.98 Mbp from WT 4.6 Mbp). 3.62 Mbp parent strain | |||||||||||||
| ET12567 |
| BLIM | str. BL26 Blue F– ompT hsdS(rB–mB+) gal dcm lac T1R base strain BL26 Blue additionally had F′[proAB lacI q lacZΔM15 ::Tn10(TetR)] | BL26 Blue (Novagen) was cured of F plasmid; made T1 phage-resistant, according to source. | Proline? | Galactose, Lactose |