Experiment set3IT081 for Pseudomonas fluorescens FW300-N2E3

LB with Tetracycline hydrochloride 0.0016 mg/ml

Group: stress
Media: LB + Tetracycline hydrochloride (0.0016 mg/ml)
Culturing: pseudo3_N2E3_ML2, 48 well microplate; Tecan Infinite F200, Aerobic, at 25 (C), shaken=orbital
By: Jayashree on 6/26/2014
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride
Growth plate: 956 C1,C2

Specific Phenotypes

For 9 genes in this experiment

For stress Tetracycline hydrochloride in Pseudomonas fluorescens FW300-N2E3

For stress Tetracycline hydrochloride across organisms

SEED Subsystems

Subsystem	#Specific
DNA repair, bacterial MutL-MutS system	1
Heat shock dnaK gene cluster extended	1
Oxidative stress	1
Photorespiration (oxidative C2 cycle)	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Tryptophan metabolism
• Glycolysis / Gluconeogenesis
• Pentose phosphate pathway
• Galactose metabolism
• Ubiquinone and menaquinone biosynthesis
• Purine metabolism
• Histidine metabolism
• Tyrosine metabolism
• Benzoxazinone biosynthesis
• Starch and sucrose metabolism
• Nucleotide sugars metabolism
• Streptomycin biosynthesis
• Lipopolysaccharide biosynthesis
• Naphthalene and anthracene degradation
• Methane metabolism
• Folate biosynthesis
• Porphyrin and chlorophyll metabolism
• Carotenoid biosynthesis - General
• Phenylpropanoid biosynthesis
• Flavonoid biosynthesis
• Anthocyanin biosynthesis
• Alkaloid biosynthesis I
• Insect hormone biosynthesis
• Biosynthesis of alkaloids derived from shikimate pathway

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
UDP-α-D-glucose biosynthesis	2	2	1
superoxide radicals degradation	2	2	1
methanol oxidation to formaldehyde IV	2	1	1
ethanol degradation IV	3	3	1
trehalose degradation V	3	2	1
GDP-α-D-glucose biosynthesis	3	2	1
reactive oxygen species degradation	4	4	1
queuosine biosynthesis I (de novo)	4	4	1
glycogen biosynthesis I (from ADP-D-Glucose)	4	3	1
starch degradation V	4	3	1
sucrose degradation IV (sucrose phosphorylase)	4	3	1
starch degradation III	4	2	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
D-galactose degradation I (Leloir pathway)	5	2	1
glucosylglycerol biosynthesis	5	2	1
CDP-6-deoxy-D-gulose biosynthesis	5	1	1
glycogen degradation II	6	5	1
superpathway of UDP-glucose-derived O-antigen building blocks biosynthesis	6	4	1
glycogen degradation I	8	6	1
sucrose biosynthesis II	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	9	1
streptomycin biosynthesis	18	2	1
superpathway of anaerobic sucrose degradation	19	15	1
superpathway of dTDP-glucose-derived O-antigen building blocks biosynthesis	19	5	1
superpathway of mycolyl-arabinogalactan-peptidoglycan complex biosynthesis	33	13	1