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Base Strains

Name

Genotype / Phenotype

Features

Resistances

Auxotrophies

Non-utilizations

MG1655str. 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 Turbostr. K-12 F′[traD36 proAB+ 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. lacIq. 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 2dGalRThiamineGalactose, 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(icdWT 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. lacIq. 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 2dGalRLeucineArabinose, Lactose, Galactose
NEB Stablestr. 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 2dGalRLeucineArabinose, 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: str. K-12 F fhuA2::IS2 Δ(mmuP-mhpD169 ΔphoA8 glnX44 φ80d[ΔlacZ58(M15)] rfbD1 gyrA96(NalR) luxS11 recA1 endA1 relAWT rphWT nupGWT thiE1 hsdR17(rK mK+) λ

Recombination-deficient. Relaxed (except NEB's). 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.
DH5α genome A, B, C.
NEB 5-alpha genome paper. NEB 5-alpha genome. BioCyc. Genetic properties.

NalRThiamineLactose
Mach1str. 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
BW25113str. 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
DB3.1str. 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 2dGalRProline, LeucineGalactose, Lactose, Xylose, Mannitol, Arabinose?
OmniMAX2str. K-12 F′[proAB+ lacIq lacZΔM15 Tn10(TetR) ΔccdABmcrA Δ(mrr-hsdRMS-mcrBC)(rK mK) φ80dlacZΔ M15 Δ(lacZYA-argF)U169 endA1 thi-1 recA1 relA1 gyrA96(NalR) fhuA2 panDCcdB-hypersensitive. T1/T5/Φ80 phage resistant. Recombination-deficient. Relaxed. Endonuclease I-deficient. Clones large plasmids. Blue/white-screening with lacZα. Parent: DH5α. Thus amber suppressor?TetR NalRThiamine, PantothenateLactose
XL1-Bluestr. K-12 F′[proAB+ lacIq lacZΔM15 Tn10(TetR) recA1 endA1 gyrA96(NalR) thi-1 hsdR17 glnV44(supE44relA1 lacRecombination-deficient. Relaxed. Endonuclease I-deficient. lacIq. Amber suppressor UAG>CAG(Gln). Blue/white-screening with lacZα.TetR NalRThiamine
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 hsdR2Host 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 2dGalRThiamine, HistidineGalactose, 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 glnV44Host 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 TetRLeucine, Thiamine, HistidineArabinose, Galactose, Mannitol
JTK165EK
(DIAL strain)
str. K-12 MC1061 Δupp:(pir folA(TmpR)) Δ(rfbBwbbL)::repA
1) Δupp::(Pcon(BBa_J23100)-rbs(?)-pirR6K -BBa_B0015(rrfBt-T7.TE) - FRT - Pcon(BBa_J23119)-4krbs-folA(TmpR)-tR2 - FRT)
2) Δ(rfbBwbbL')::(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 TmpRLeucineGalactose, Lactose, Arabinose
EC100Dstr. 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.
Recombination-deficient. Endonuclease I-deficient.

StrR TmpR 2dGalR
Galactose, Lactose, Arabinose
BW25141Δ(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
BW23474Δ(argF-lac)169 ΔuidA4::pir-116 recA1 rpoS396(Am) ΔendA9::FRT rph-1 hsdR514(rK mK+) rob-1 creC510pir+: 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) ΔrecAIncP(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 ZeoRDAP
Syn61Δ3(ev5)MDS42 recoded(TCG,TCA,TAG) ΔserT ΔserU ΔprfA0.7 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.
?
BW29655str. 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/LLeucineArabinose, Lactose, Galactose
Marionette-Pro sAJM.1505str. 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-12S)

lac-inducible T7 RNAP. proteases dcm motility.
Genome paper1, paper2a, paper2b, paper2c. Genome. Biocyc.



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. proteasesdcm.
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
BLIMstr. B BL26 Blue F ompT hsdS(rB mB) gal dcm lac T1R
Parent strain BL26 Blue additionally had F′[proAB lacIq 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::cymRq PCP8-araE Pcon-araC ΔaraBAD lacIq1 dnaG Q576A ΔrecJ ΔsbcBTetR-controlled recombination system. Mutations to stabilize ssDNA. Constitutive lacI, araC, tetR, cymR. Linear ara induction from constitutive araE. Faster minimal media growth from ilvG+.
BiotinArabinose






Crooks (ATCC 8739)
Used for antimicrobial and bioresistance testing. Genome.?

Nissle 1917pMUT1[ori ColE1] pMUT2[ori ColE2]Wild, gut-colonizing strain used as a probiotic. Has native ColE1 and ColE2 plasmids.
History. Nissle engineering. Genome. BioCyc.
?

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