Experiment set42IT008 for Escherichia coli BW25113

LB + ciprofloxacin regrowth after 48hrs

Group: stress
Media: LB + Ciprofloxacin Hydrochloride (7.50E-11 mg/mL), pH=7
Culturing: Keio_ML9a, 50mL bottle, Anaerobic, at 37 (C), shaken=0 rpm
By: Charlotte Brannon/Becca Culver on 21-Oct-20
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride

Specific Phenotypes

For 6 genes in this experiment

For stress Ciprofloxacin Hydrochloride in Escherichia coli BW25113

For stress Ciprofloxacin Hydrochloride across organisms

SEED Subsystems

Subsystem	#Specific
CBSS-214092.1.peg.3450	2
Lysine degradation	2
Serine-glyoxylate cycle	1
Succinate dehydrogenase	1
TCA Cycle	1

Metabolic Maps

Color code by fitness: see overview map or list of maps.

Maps containing gene(s) with specific phenotypes:

• Lysine degradation
• Citrate cycle (TCA cycle)
• Oxidative phosphorylation
• Peptidoglycan biosynthesis
• Benzoate degradation via CoA ligation
• Butanoate metabolism
• Reductive carboxylate cycle (CO2 fixation)
• Biotin metabolism
• Alkaloid biosynthesis II
• Biosynthesis of phenylpropanoids
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
cadaverine biosynthesis	1	1	1
NADH to fumarate electron transfer	2	2	1
glycerol-3-phosphate to fumarate electron transfer	2	2	1
hydrogen to fumarate electron transfer	2	1	1
succinate to cytochrome aa3 oxidase electron transfer	2	1	1
aminopropylcadaverine biosynthesis	3	3	1
lupanine biosynthesis	5	1	1
bisucaberin biosynthesis	5	1	1
desferrioxamine B biosynthesis	5	1	1
desferrioxamine E biosynthesis	5	1	1
L-lysine degradation X	6	5	1
L-lysine degradation I	7	7	1
incomplete reductive TCA cycle	7	5	1
pyruvate fermentation to propanoate I	7	5	1
superpathway of polyamine biosynthesis I	8	7	1
TCA cycle VI (Helicobacter)	9	7	1
reductive TCA cycle I	11	8	1
L-glutamate degradation VIII (to propanoate)	11	5	1
reductive TCA cycle II	12	8	1
(S)-lactate fermentation to propanoate, acetate and hydrogen	13	10	1
mixed acid fermentation	16	16	1
superpathway of arginine and polyamine biosynthesis	17	16	1
superpathway of L-lysine degradation	43	14	1
Methanobacterium thermoautotrophicum biosynthetic metabolism	56	22	1