Brought to you by and meticulously curated by Shyam. See OpenWetWare for a guide to genotype abbreviations.
Standing on the Shoulders of a Tiny Giant ; EcoSal Plus Journal
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 paper (old), paper (new). Essential genome. Genome. BioCyc. Allele variations. Allele table. | — | — | — |
| NEB Turbo | str. K-12 F′[traD36 proAB + lacI q 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. 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. | NitR 2dGalR | Thiamine | Galactose, Lactose |
| DH10B (Invitrogen) = TOP10 (Thermo) ≈ NEB 10-beta | str. K-12 F– Δ(ara-leu)7697 Δ(rapA'-cra')] Δ(lac)X74[Δ('yahH-mhpE)] DUP(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– Missense(dnaA glmS glyQ lpxK mreC murA) Nonsense(chiA gatZ fhuA? yigA ygcG) Frameshift(flhC mglA fruB) 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 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 10-beta except with additional F′ plasmid and TetR. | StrR 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-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/ properties. Genome (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 +) | 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′[proAB+ 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 |
| XL1-Blue | str. K-12 F′[proAB + lacI q lacZΔM15 Tn10(TetR) recA1 endA1 gyrA96(NalR) thi-1 hsdR17 glnV44(supE44) relA1 lac | Recombination-deficient. Relaxed. Endonuclease I-deficient. lacI q. Amber suppressor UAG>CAG(Gln). Blue/white-screening with lacZα. | TetR NalR | Thiamine | |
| NEB dam – /dcm – = ER2925 | 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) | str. K-12 F– 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). | ChlR StrR TetR | Leucine, Thiamine, Histidine | Arabinose, Galactose, Mannitol |
| JTK165EK (DIAL strain) | str. K-12 MC1061 Δupp:(pir folA(TmpR)) Δ(rfbB–wbbL)::repA 1) Δupp::(Pcon(BBa_J23100)-rbs(?)-pirR6K -BBa_B0015(rrfBt-T7.TE) - FRT - Pcon(BBa_J23119)-4krbs-folA(TmpR)-tR2 - FRT) 2) Δ(rfbB–wbbL')::(Pcon(BBa_J23119)-rbs(?)-repAColE2-P9 -BBa_B0015(rrfBt-T7_TE) - FRT) | pir + repA +: Replicates conditional oriV R6Kγ and oriV ColE2 plasmids. Relaxed. lacI– . Improved cloning 5-mC DNA. Obtained by Shyam Cas9-curing plasmid from Addgene #85150. | StrR TmpR | Leucine | Galactose, Lactose, Arabinose |
| 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 ori R6Kγ 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 ori R6Kγ plasmids using genomic pir at medium copy ≈15. Deletion of phoBR. Recombination-deficient. Endonuclease I-deficient. Paper. | 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 ori R6Kγ plasmids using genomic pir-116 at high copy. Recombination-deficient. Endonuclease I-deficient. CGSC. | Lactose | ||
| MFDpir | MG1655 glvB::[RP4-2 TetR::Mu ΔMu1::aac(3′)IV(AprR) Δaph(3′)VIII (KanS) Δnic35 ΔMu2::ble(ZeoR)] ΔdapA::(ermB-pir-116)(EryR) ΔrecA | IncP(RK2/RP4) non-self-transmissable conjugation donor. DAP (diaminopimelate) auxotroph. Recombination-deficient. pir + : Replicates conditional ori R6Kγ plasmids using genomic pir-116 at high copy. Paper. Genome. | EryR AprR ZeoR | DAP | |
| Syn61Δ3(ev5) | MDS42 recoded(TCG,TCA,TAG) ΔserT ΔserU ΔprfA | 0.7 MB-shortened, IS/prophage-free strain MDS42 recoded with synonymous CDS mutations for serine codons TCG, TCA and amber stop TAG. Deleted of corresponding tRNA and release factor. Evolved for improved growth rate. Paper. | – | ? | |
| BW29655 | str. K-12 F– Δ(araBAD)567 ΔlacZ4787(::rrnB-3) λ– Δ(envZ-ompR)520(::FRT) Δ(rhaBAD)568 hsdR514(rK – mK +) rph + =str. K-12 BW25113 rph+ Δ(envZ-ompR)520(::FRT) | Base strain for refactored light systems. Described in this study. lacI + . | Arabinose, Lactose, Rhamnose | ||
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. (no DE3 and T7 RNAP.) | low ChlR 5 mg/L | Galactose | |
| Marionette-Wild sAJM.1506 | str. K-12 MG1655 glvC::(Marionette cluster*)(ChlR) *[hisIt PJ23119-phlFAM-cymRAM-luxR-vanRAM araCUTR PlacI-lacIAM-tetR-araCAM-araE ihfAt PJ23100 -betIAM-ttgRAM-pcaUAM-nahRAM-cinRAM hisLt cat(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 PlacUV5-T7p07 ind1 sam7 nin5]) [malB +]K-12(λS) | lac-inducible T7 RNAP. proteases– dcm– motility–. | 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 T1 R 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, gut-colonizing strain used as a probiotic. Has native ColE1 and ColE2 plasmids. History. Nissle engineering. Genome. BioCyc. | ? | ||
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 | |
| BLR(DE3) (Novagen®) | str. B F– ompT hsdS B(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 hsdS B(rB – mB –) gal dcm λ(DE3 [lacI PlacUV5-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 folA(TmpR)) Δ(rfbB–wbbL)::repA 1) Δupp::(Pcon(BBa_J23100)-rbs(?)-pir-BBa_B0015(rrfBt-T7.TE) - FRT - Pcon(BBa_J23119)-4krbs-folA(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(rK –) | 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(KanR) ilvG + rph + Δ(hella shit) | 35% reduced genome (2.98 Mbp from WT 4.6 Mbp). 3.62 Mbp parent strain | |||