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Table 1 Strains, plasmids and primers used in this study

From: Combining directed evolution of pathway enzymes and dynamic pathway regulation using a quorum-sensing circuit to improve the production of 4-hydroxyphenylacetic acid in Escherichia coli

Name

Description

Source/purpose

Strain

 E. coli DH5α

supE44 Δ(lacZYA-argF) U169 (Φ80lacZ ΔM15) hsdR17 recA endA1 gyrA96 thi-1 relA1

Invitrogen

 E. coli BW 25113

lacI q rrnB T14 ΔlacZ WJ16 hsdR514 ΔaraBAD AH33 ΔrhaBAD LD78

[17]

 E. coli DOPA-30N

L-DOPA overproducer

[16]

Plasmid

 pBbB2k-GFP

Expressing plasmid, BglBrick vectors, tet promoter, pBBR1 ori, kanr, Addgene plasmid #35345

[18]

 pBbB2k-ipdC-L-feaB

pBbB2k derivatives harboring the fusion gene cluster of ipdC from Azospirillum brasilense and feaB from E. coli with a (GSG)2 linker

This study

 pBbB2k-ARO10-L-feaB

pBbB2k derivatives harboring the fusion gene cluster of ARO10 from Saccharomyces cerevisiae and feaB from E. coli with a (GSG)2 linker

This study

 pBbB2k-aas-L-feaB

pBbB2k derivatives harboring the fusion gene cluster of aas from Petroselinum crispum and feaB from E. coli with a (GSG)2 linker

This study

 pBbB2k-tydc-L-tynA-L-feaB

pBbB2k derivatives harboring the fusion gene cluster of tydc from Pseudomonas putida KT2440, tynA and feaB from E. coli with a (GSG)2 linker

This study

 pBbB2k-ARO10*- L-feaB*

pBbB2k derivatives harboring the fusion gene cluster of the evolved ARO106D5 from S. cerevisiae and feaB2E1 from E. coli with a (GSG)2 linker

This study

 pBbB2k-ARO10*-feaB*

pBbB2k derivatives harboring the gene cluster of the evolved ARO106D5 from S. cerevisiae and feaB2E1 from E. coli, one operon

This study

 pBbB2k-ARO10*-TIGR-feaB*

pBbB2k derivatives harboring the TIGR-mediated gene cluster of the evolved ARO106D5 from S. cerevisiae and feaB2E1 from E. coli

This study

 pZBK

BglBrick/ePathBrick expression vector, pBBR1 ori, P37 promoter, kanr

[19]

 pZBK-PesaSIC-PesaRAS

Quorum-sensing plasmid, pBBR1 ori, P37 promoter, kanr

This study

 pZBK-PesaRAS-4HPAA

pZBK-PesaSIC-PesaRAS harboring the TIGR-mediated gene cluster of the evolved ARO106D5 from S. cerevisiae and feaB2E1 from E. coli

This study

Primer

 FeaBF

CCGGAATTCAAAAGATCTGGTATGACAGAGCCGCATGTAGCAG (EcoRI, BglII)

PCR for feaB

 FeaBR

CGCGGATCCTTAATACCGTACACACACCGACTTAGTTTCACACCAAC (BamHI)

 

 TynAF

CCGGAATTCAAAAGATCTGGTATGGGAAGCCCCTCTCTGTATTCTG (EcoRI, BglII)

PCR for tynA

 TynAR

CGCGGATCCACCTGAACCCTTATCTTTCTTCAGCGCCC (BamHI)

 

 ARO10F

CCGGAATTCAAAAGATCTTTTCGGAATTAAGGAGGTAATAAATATGGCACCTGTTACAATTG (EcoRI, BglII)

PCR for ARO10

 ARO10R

CGCGGATCCACCACTACCTTTTTTATTTCTTTTAAGTG (BamHI)

 

 AROF

GATAGAGAAAAGAATTCAAAAGATCTTTTCGGAATTAAGGAGG (EcoRI, BglII)

error-prone PCR forARO10-feaB

 FeaR

TACTCGAGTTTGGATCCTTAATACCGTACACACACCGACTT (BamHI)

 

 epAROF

ACCTTCGATTCCGACCTCATTAAGC

error-prone PCR for ARO10

 epAROR

CGCGGATCCTTAATACCGAACACACACCGACTTAGTTTCACACCAAC

 

 TIGRs-F(X)

CTAGCTAGCGCCTAGCAAGATCTCCTGATCCCGGTGC (NheI)

PCR for TIGRs

 TIGRs-R(A)

TTTTCCTTTTGCGGCCGCGGATACAGTATCTGCGGTACCCTAG (NotI)

 

 Qaro10F

CGACACCTTGTTTCCAACCG

qRT-PCR for ARO10

 Qaro10R

TGAAGTCACCAGGAACACCG

 

 QfeaBF

GCCAACGCTGGTGGTAAATC

qRT-PCR for feaB

 QfeaBR

GCCTCTTCTCCATCCGCTAC

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