Experiment set4IT074 for Pseudomonas simiae WCS417

LB with Cisplatin 0.01 mg/ml

Group: stress
Media: LB + Cisplatin (0.01 mg/ml)
Culturing: fluoroDangl_ML3, 48 well microplate; Tecan Infinite F200, Aerobic, at 25 (C), shaken=orbital
By: Mark on 3/1/2015
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride
Growth plate: 1161 B5,B6

Specific Phenotypes

For 28 genes in this experiment

For stress Cisplatin in Pseudomonas simiae WCS417

For stress Cisplatin across organisms

SEED Subsystems

Subsystem	#Specific
DNA-replication	7
DNA repair, bacterial	5
DNA repair, bacterial RecFOR pathway	4
DNA Repair Base Excision	3
DNA repair, UvrABC system	3
Polyamine Metabolism	2
DNA repair, bacterial DinG and relatives	1
Methionine Salvage	1
Multidrug Resistance Efflux Pumps	1
Proteasome bacterial	1
Proteolysis in bacteria, ATP-dependent	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
• Glycolysis / Gluconeogenesis
• Pentose phosphate pathway
• Galactose metabolism
• Pyrimidine metabolism
• Methionine metabolism
• Starch and sucrose metabolism
• Nucleotide sugars metabolism
• Streptomycin biosynthesis
• Lipopolysaccharide biosynthesis
• Folate biosynthesis

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
UDP-α-D-glucose biosynthesis	2	2	1
trehalose degradation V	3	2	1
GDP-α-D-glucose biosynthesis	3	2	1
5'-deoxyadenosine degradation I	3	1	1
sucrose degradation IV (sucrose phosphorylase)	4	3	1
starch degradation V	4	3	1
glycogen biosynthesis I (from ADP-D-Glucose)	4	3	1
starch degradation III	4	2	1
5'-deoxyadenosine degradation II	4	1	1
dTDP-β-L-rhamnose biosynthesis	5	5	1
glucose and glucose-1-phosphate degradation	5	4	1
sucrose degradation II (sucrose synthase)	5	4	1
CDP-6-deoxy-D-gulose biosynthesis	5	3	1
D-galactose degradation I (Leloir pathway)	5	3	1
glucosylglycerol biosynthesis	5	2	1
S-methyl-5-thio-α-D-ribose 1-phosphate degradation III	5	2	1
S-methyl-5-thio-α-D-ribose 1-phosphate degradation II	5	2	1
glycogen degradation II	6	5	1
superpathway of UDP-glucose-derived O-antigen building blocks biosynthesis	6	4	1
S-methyl-5-thio-α-D-ribose 1-phosphate degradation I	7	2	1
sucrose biosynthesis II	8	6	1
glycogen degradation I	8	6	1
glycogen biosynthesis III (from α-maltose 1-phosphate)	8	3	1
sucrose biosynthesis I (from photosynthesis)	9	7	1
chitin biosynthesis	9	5	1
starch biosynthesis	10	5	1
O-antigen building blocks biosynthesis (E. coli)	11	10	1
colanic acid building blocks biosynthesis	11	8	1
L-methionine salvage cycle III	11	5	1
L-methionine salvage cycle II (plants)	11	3	1
L-methionine salvage cycle I (bacteria and plants)	12	4	1
streptomycin biosynthesis	18	3	1
superpathway of anaerobic sucrose degradation	19	14	1
superpathway of dTDP-glucose-derived O-antigen building blocks biosynthesis	19	5	1
superpathway of mycolyl-arabinogalactan-peptidoglycan complex biosynthesis	33	12	1