Media amendments

Preparation: Generally, prepare 30-50 mL of solution in a 50 mL conical tube. Then, filter sterilize solutions by pushing them through a 50 mL syringe fitted with a 0.22 µm filter made of a material appropriate for the solvent. Compounds dissolved in Ethanol or DMSO do not require filter sterilization. Aliquot into 1.5 mL portions in 1.7 mL tubes using the repeat pipettor. Label with a permanent marker (one that won't wash off with ethanol). Store at -20°C in the dark.

Working concentrations are for liquid or solid media.

Antibiotic concentrations and stock solutions

This table lists “standard” concentrations of antibiotics commonly used in microbiology laboratories. These concentrations apply to E. coli. Antibiotic selection in other organisms may use different concentrations, so check primary literature for more info.

Reagent	Abb	Stock Conc.	Working Conc.	Dilution	Solvent	MSDS	Notes
Ampicillin	Amp	100 mg/mL	100 µg/mL	1,000×	ddH2O	link	Ampicillin degrades quickly in both plates and stock solutions. Culture plates with Amp can be stored at 4°C for about 2 weeks. Stock solutions can be stored at 4°C for 2 weeks but can last as long as 4-6 months when stored at -20°C. In general, use carbenicillin for ampicillin selection, because it is more chemically stable.
Carbenicillin	Crb	100 mg/mL	100 µg/mL	1,000×	50% EtOH	link	Carbenicillin can be used in place of Ampicillin at the same working concentration. Carbenicillin is more stable than Ampicillin, and is generally preferable.
Chloramphenicol	Cam	20 mg/mL	20 µg/mL	1,000×	EtOH	link
Cycloheximide	Chx	100 mg/mL	100 µg/mL	1,000×	100% DMSO	link	Anti-fungal, toxic to humans, use PPE!
D-Cycloserine	Dcs	4 mg/mL	4 µg/mL	1,000×	ddH2O	link	Degrades noticeably over the course of 1 week at 4°C. D-cycloserine is best used within two days of pouring. A single small-scale experiment found 6-10x as many E. coli colonies on 8-day old MG-Dcs plates that had spent 3 of those days at -20°C and 5 at 4°C, compared to what was found on 1 day old MG-Dcs.
Erythromycin	Ery	250 mg/mL	250 µg/mL	1,000x	EtOH	link	May crystallize when added to liquid culture. Still works. Selection strength may vary in non-model bacteria
Gentamicin	Gen	20 mg/mL	20 µg/mL	1,000×	ddH2O	link	Possible cross-talk with kanamycin, another aminoglycoside E. coli may spontaneously develop resistance on the chromosome(?) -Alexa
G418	G418	200 mg/mL	200 µg/mL	1000x	ddH2O	link	Geneticin generic. Powder store RT. Stock solution at -20°C
Kanamycin	Kan	50 mg/mL	50 µg/mL	1,000×	ddH2O	link	Possible cross-talk with gentamicin, another aminoglycoside
Nalidixic Acid	Nal	30 mg/mL	30 µg/mL	1,000×	1M NaOH	link
Novobiocin	Nov	200 mg/mL	200 µg/mL	1,000×	ddH2O	link
Rifampicin	Rif	50 mg/mL	100 µg/mL	500×	MeOH + drops of 10M NaOH	link	While dissolving Rifampicin in MeOH, there might be a small residue left at the bottom which may not go into solution even after adding a few drops of NaOH. Toxic to humans, use PPE! Rifampicin is TOXIC to humans, light-sensitive, and degrades in solution rather quickly. It needs to be stored wrapped in foil and replaced every 2 months.
Spectinomycin	Spec	60 mg/mL	60 µg/mL	1,000×	ddH2O	link	Spontaneous mutations in the chromosome can yield resistant colonies. Recommend using at a 120 µg/mL working concentration when cloning to decrease this background!! (double what you would normally add to your media)
Streptomycin	Str	100 mg/mL	100 µg/mL	1,000×	ddH2O	link
Tetracycline	Tet	10 mg/mL	10 µg/mL	1,000×	70% EtOH	link	Light sensitive, stability < 2 weeks
Trimethoprim	TMP	10 mg/mL	variable?	variable	DMSO	link	Both 10 and 20 µg/ml listed for use. Use as counter selectable marker for mutations in thyA requires presence of thymine/thymidine in media
Zeocin	Zeo	25 mg/mL	25 µg/mL	1,000×	ddH2O	link	Product literature lists active range of 25 - 50 µg/ml for E. coli and 50 - 300 in yeast. In our hands we note: 10 µg/mL is specifically used for growth of amberless strain A37. For yeast, 100µg / ml is sufficient.

Small molecule inducers for Voigt's Marionette biosensors

Abb	Reagent	Promoter	TF	Solvent	MW (g/mol)	Stock Conc.	Working Conc.	Dilution	MSDS	BTK Parts	Notes
Van	Vanillic acid	PVanCC	VanRAM	EtOH	168.15	100 mM	100 µM	1000x	link	pBTK1075 pBTK1076
OHC14	N-(3-Hydroxytetradecanoyl)- DL-homoserine lactone	PCin	CinRAM	DMF	327.46	10 mM	10 µM	1000x	link	pBTK1077 pBTK1078	Toxic to E. coli at high concentrations
Ara	L-arabinose	PBAD	AraCAM + AraE	ddH2O	150.13	400 mM	4 mM	100x	link	pBTK1073 pBTK1074	Cross-talk with IPTG
aTc	Anhydrotetracycline	PTet*	TetR	50% EtOH 50% ddH2O	462.88	10 mM	10 µM	1000x	link	pBTK1067 pBTK1068	Toxic to humans, light-sensitive
IPTG	Isopropyl β-D-1- thiogalactopyranoside	PTac	LacIAM	ddH2O	238.30	100 mM	1 µM	100x	link	pBTK1069 pBTK1070	Cross-talk with Ara
Cuma	Cuminic acid	PCymRC	CymRAM	EtOH	164.20	100 mM	100 µM	1000x	link	pBTK1071 pBTK1072
OC6	3-oxohexanoyl- homoserine lactone	PLuxB	LuxR	DMSO	213.23	10 mM	10 µM	1000x	link	None, piGEM23_013 is PLuxB part	Not tested

Other common media amendments

Reagent	Abb	Stock Conc.	Working Conc.	Dilution	Solvent	MSDS	Notes
5-fluorouracil	5FU	13 mg/mL	13 µg/mL	1,000×	DMSO	link	100mM stock concentration 100µM working concentration
Anhydrotetracycline	ATC	0.1 mg/mL	100 ng/mL	1,000×	DMSO	link	Can also make a 1mg/mL stock and dilute 1:10 for a final concentration of 0.1mg/mL
3′-Azido-2′,3′-dideoxythymidine	AZT	10 mg/mL	200 µg/mL	50×	ddH2O	link	Can substitute pharma grade Zidovudine. Soluble up to 20 mg/mL in ddH2O. Very unstable in solution. Store at –20°C and activity will still decrease over weeks of storage.
Bromo-chloro-indolyl-galactopyranoside	X-gal	40 mg/mL	80 µg/mL	500×	Dimethylformamide (DMF)	link	X-gal is a histochemical substrate for β-galactosidase, which cleaves X-Gal to yield an insoluble blue precipitate.
Diaminopimelic acid	DAP	60 mM	0.3 mM	200×	ddH2O	link	Use 5 µl stock per 1 ml of media. Dissolve ~30min shaking at 37C
Isopropyl β-D-1-thiogalactopyranoside	IPTG	0.1 M	0.1 mM	1,000×	ddH2O	link	Light sensitive, MW: 238.31 g/mol
Triphenyl Tetrazolium Chloride	TTC	5% (50 mg/mL)	0.05% (50 µg/mL)	1,000×	ddH2O	link	Used in growth/sugar-fermentation indicator agars. Filter sterilize. Light sensitive. Store stock solution at 4°C wrapped in foil. Use at ten-fold higher concentration in motility agar (0.5%).

Non-canonical amino acid stock solutions

Amino Acid (Abbreviation)	CAS Number	Solvent	MW (g/mol)	[Stock]	[Stock] (mg/mL)	[Culture]	Notes
Y	60-18-4	Water	181.19	10mM	1.812	250µM	Requires heating to 70ºC to dissolve Stock precipitates out of solution at or below room temperature
IodoY	70-78-0	Water	307.09	10mM	3.071	250µM	Dissolves at room temperature with ~1 hour of shaking
AminoY (FAA)	300-34-5		196.203
AminoY (HS)	23279-22-3	Water	287.14	10mM		250µM	Dissolves readily without shaking or heat
BromoY	38739-13-8	Water	260.0846	10mM		250µM
ChloroY	7423-93-0	Water	215.63	10mM		250µM
NitroY	621-44-3	Water	226.2	10mM	2.262	250µM	Will dissolve with heating to 50ºC, no shaking
ONBY (FAA)	184591-51-3		316.31				Light sensitive
ONBY (S)	207727-86-4	50% DMSO 50% Water (exothermic)	352.77	50 mM		250µM	Light sensitive Requires adding OH- to dissolve
AzF	33173-53-4	10% DMSO 90% Water	206.204	10mM	2.062	250µM	Light sensitive Requires heating and shaking to dissolve
CNF	167479-78-9	Water	190.2	10mM	1.902	250µM	Dissolves at room temperature with ~15 minutes of shaking
L-DOPA	59-92-7	Water	197.1879	10mM	1.972	250µM	Oxidizes quickly and turns black in solution
5HTP	4350-09-8	Water	220.2246	10mM	2.202	250µM

FAA: free amino acid
S: salt
HS: hydrated salt