Experiment set2IT044 for Escherichia coli BW25113

LB with Cisplatin 0.1 mg/ml

Group: stress
Media: LB + Cisplatin (0.1 mg/ml)
Culturing: Keio_ML9, 48 well microplate; Tecan Infinite F200, Aerobic, at 28 (C), shaken=orbital
By: Kelly on 6/30/2014
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride
Growth plate: 960 F1,F2

Specific Phenotypes

For 30 genes in this experiment

For stress Cisplatin in Escherichia coli BW25113

For stress Cisplatin across organisms

SEED Subsystems

Subsystem	#Specific
DNA-replication	3
Selenocysteine metabolism	3
DNA repair, UvrABC system	2
DNA repair, bacterial	2
DNA Repair Base Excision	1
DNA repair, bacterial DinG and relatives	1
DNA repair, bacterial RecFOR pathway	1
Formate dehydrogenase	1
Formate hydrogenase	1
Glycine and Serine Utilization	1
Glycogen metabolism	1
Maltose and Maltodextrin Utilization	1
Protein degradation	1
Pyruvate Alanine Serine Interconversions	1
Threonine anaerobic catabolism gene cluster	1
Transcription factors bacterial	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Purine metabolism
• Selenoamino acid metabolism
• Pyrimidine metabolism
• Starch and sucrose metabolism
• Lipopolysaccharide biosynthesis
• Glyoxylate and dicarboxylate metabolism
• Methane metabolism
• Folate biosynthesis
• Aminoacyl-tRNA biosynthesis

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
formate oxidation to CO2	1	1	1
L-selenocysteine biosynthesis I (bacteria)	3	3	2
formate to dimethyl sulfoxide electron transfer	2	2	1
formate to trimethylamine N-oxide electron transfer	2	2	1
nitrate reduction III (dissimilatory)	2	2	1
polyphosphate metabolism	2	2	1
formate to nitrite electron transfer	3	2	1
heme b biosynthesis I (aerobic)	4	4	1
heme b biosynthesis II (oxygen-independent)	4	4	1
heme b biosynthesis V (aerobic)	4	4	1
starch degradation V	4	3	1
oxalate degradation VI	4	2	1
L-selenocysteine biosynthesis II (archaea and eukaryotes)	4	2	1
oxalate degradation III	5	2	1
ppGpp metabolism	6	6	1
superpathway of heme b biosynthesis from uroporphyrinogen-III	6	6	1
glycogen degradation I	8	8	1
superpathway of heme b biosynthesis from glycine	8	7	1
sucrose biosynthesis II	8	6	1
starch degradation II	9	1	1
superpathway of heme b biosynthesis from glutamate	10	10	1
superpathway of C1 compounds oxidation to CO2	12	4	1
purine nucleobases degradation I (anaerobic)	15	6	1
purine nucleobases degradation II (anaerobic)	24	17	1