Table 2 Strains and plasmids used in this study
Name | Relevant genotype | Source |
|---|---|---|
E. coli strains | ||
DH5α | F– Φ80lacZΔM15 Δ(lacZYA-argF) U169 recA1 endA1 hsdR17 (rK–, mK+) phoA supE44 λ– thi-1 gyrA96 relA1 | Invitrogen |
DH10B | F− mcrA Δ(mrr-hsdRMS-mcrBC) Φ80lacZΔM15 ΔlacX74 recA1 endA1 araD139Δ(ara, leu)7697 galU galK λ− rpsL nupG | Invitrogen |
MG1655 | F− λ− ilvG- rfb-50 rph-1 | ATCC 700926 |
MG1655(DE3) | F− λ− ilvG- rfb-50 rph-1 (DE3) | Ref. [55] |
RARE | MG1655(DE3) ∆dkgB ∆yeaE ∆(yqhC-dkgA) ∆yahK ∆yjgB | Ref. [5] |
RARE ∆metJ | MG1655(DE3) ∆dkgB ∆yeaE ∆(yqhC-dkgA) ∆yahK ∆yjgB ∆metJ | This study |
PTS− glu+ | MG1655(DE3) ∆ptsHIcrr Pglk::Pcon* galPq | This study, but based on Ref. [56] |
PTS− glu+ RARE’ | MG1655(DE3) ∆ptsHIcrr Pglk::Pcon* galPq ∆(yqhC-dkgA) ∆yahK ∆yjgB | This study |
PTS− glu+ RARE’ ∆metJ | MG1655(DE3) ∆ptsHIcrr Pglk::Pcon* galPq ∆(yqhC-dkgA) ∆yahK ∆yjgB ∆metJ | This study |
E. coli plasmids | ||
pCP20 | λ cI857 (ts), λ pr Repts, AmpR, CmR, λ pr FLP | CGSC 7629 |
pKD13 | oriRγ, AmpR, kan | CGSC 7633 |
pKD46 | oriR101, repA101 ts, AmpR, araC, araBp-λ γ -λ β -λexo | CGSC 7739 |
pETDuet-1 | AmpR, lacI, T7lac | Novagen |
pACYCDuet-1 | CmR, lacI, T7lac | Novagen |
pCOLADuet-1 | KanR, lacI, T7lac | Novagen |
pCDFDuet-1 | StrR, lacI, T7lac | Novagen |
pACYC-car-sfp | pACYCDuet-1 harboring car opt (carboxylic acid reductase from Nocardia iowensis, codon-optimized for expression in E. coli) and sfp opt (phosphopantetheinyl transferase from Bacillus subtilis, codon optimized for expression in E. coli) | Ref. [5] |
pET-OMT-asbF | pETDuet-1 harboring Hs-S-COMT opt (catechol O-methyltransferase from Homo sapiens, codon-optimized for expression in E. coli) and asbF opt (dehydroshikimate dehydratase from Bacillus thuringiensis, codon optimized for expression in E. coli) | Ref. [5] |
pS4 | Plasmid containing the shikimate module, version 4, kindly provided by the Keasling Lab at UC Berkeley. (Source of aroG*-ppsA-tktA artificial operon) | Ref. [57] |
pACYC-aroG* | pACYCDuet-1 harboring the feedback-resistant aroG* from E. coli | This study |
pACYC-aroG*-ppsA-tktA | pACYCDuet-1 harboring three E. coli genes in an artificial operon: aroG*, ppsA, and tktA | This study |
pCOLA-metK | pCOLADuet-1 harboring the E. coli metK gene | This study |
pET-OMT | pETDuet-1 harboring Hs-S-COMT opt | This study |
pCOLA-metA* | pCOLADuet-1 harboring a feedback-desensitized version of E. coli metA (27_Arg- > Cys, 296_Ile- > Ser, and 298_Pro- > Leu, “metA*”) | This study |
pCOLA-cysE* | pCOLADuet-1 harboring a feedback-desensitized version of E. coli cysE (95_Val- > Arg, and 96_Asp- > Pro, “cysE*”) | This study |
pCOLA-metA*-cysE* | pCOLADuet-1 harboring an artificial operon consisting of the metA* and cysE* genes | This study |
pCDF-car-sfp | pCDFDuet-1 harboring an artificial operon containing car opt and sfp opt | This study |
pCOLA-mtn | pCOLADuet-1 harboring the E. coli mtn gene | This study |
pCOLA-mtn-luxS | pCOLADuet-1 harboring an artificial operon consisting of the E. coli mtn and luxS genes | This study |
pCOLA-sahH | pCOLADuet-1 harboring sahH Sc (S-adenosylhomocysteine hydrolase from S. cerevisiae, codon-optimized for expression in E. coli) | This study |