|
| Bacterial and virus strains |
|
|
|
|
Escherichia coli, strain BW135112
|
KEIO collection |
NZ_CP037857 |
|
| Chemicals, peptides, and recombinant proteins |
|
|
|
| M9 minimal media |
BDDiagnostics |
DF0485–17 |
|
| Critical commercial assays |
|
|
|
| ZR Plasmid Miniprep |
Zymogen |
Cat#D4015 |
|
| Experimental models: Organisms/strains |
|
|
|
|
Escherichia coli, strain MG1655 – Complete list of modified E. coli strains can be found in Tables S2 and S4
|
This Paper |
CGSC#6300 |
|
| Oligonucleotides |
|
|
|
| Position Sweep Primers for ccdB cassette insertion into pZS25LongUPDL5-delbs-YFP (see Table S5 – Supplement Section) |
Primer design using custom-made python script, synthesized by Genewiz |
N/A |
| Primers for amplifying the TF gene cassettes from the MG1655 genome – See Table S1
|
Genewiz |
N/A |
|
| Recombinant DNA |
|
|
|
| pDONR P4-P1r |
Thermo Fisher (Invitrogen-Life Technologies) |
N/A |
|
ccdB Position cloning strains (Table S6) |
This Paper |
N/A |
|
| Software and algorithms |
|
|
|
| MATLAB |
https://www.mathworks.com/products/matlab.html
|
N/A |
| Python |
https://www.python.org/downloads/
|
N/A |
| PyMC3 |
https://docs.pymc.io/en/stable/about.html
|
N/A |
