Experiment set3IT093 for Pseudomonas fluorescens FW300-N2E3

LB with Lomefloxacin hydrochloride 0.001 mM

Group: stress
Media: LB + Lomefloxacin hydrochloride (0.001 mM)
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: 957 C5,C6

Specific Phenotypes

For 29 genes in this experiment

For stress Lomefloxacin hydrochloride in Pseudomonas fluorescens FW300-N2E3

For stress Lomefloxacin hydrochloride across organisms

SEED Subsystems

Subsystem	#Specific
DNA repair, bacterial	4
Heat shock dnaK gene cluster extended	3
ATP-dependent RNA helicases, bacterial	1
DNA-replication	1
DNA Repair Base Excision	1
DNA repair, bacterial DinG and relatives	1
DNA repair, bacterial MutL-MutS system	1
Glutathione: Non-redox reactions	1
Heme and Siroheme Biosynthesis	1
Lipid A-Ara4N pathway ( Polymyxin resistance )	1
Lipid A modifications	1
Methylglyoxal Metabolism	1
Periplasmic disulfide interchange	1
Queuosine-Archaeosine Biosynthesis	1
ZZ gjo need homes	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Purine metabolism
• Benzoxazinone biosynthesis
• Porphyrin and chlorophyll metabolism
• Ubiquinone and menaquinone biosynthesis
• Pyrimidine metabolism
• Glycine, serine and threonine metabolism
• Methionine metabolism
• Lysine biosynthesis
• Lysine degradation
• Arginine and proline metabolism
• Histidine metabolism
• Tyrosine metabolism
• Tryptophan metabolism
• Aminophosphonate metabolism
• Nucleotide sugars metabolism
• Lipopolysaccharide biosynthesis
• Pyruvate metabolism
• Naphthalene and anthracene degradation
• Thiamine metabolism
• Nicotinate and nicotinamide metabolism
• Folate biosynthesis
• Diterpenoid biosynthesis
• Carotenoid biosynthesis - General
• Caprolactam degradation
• Phenylpropanoid biosynthesis
• Flavonoid biosynthesis
• Anthocyanin biosynthesis
• Alkaloid biosynthesis I
• Insect hormone biosynthesis
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of alkaloids derived from histidine and purine

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
UTP and CTP dephosphorylation I	7	5	4
methylglyoxal degradation I	3	2	1
NAD salvage pathway III (to nicotinamide riboside)	3	2	1
methylglyoxal degradation VIII	3	2	1
purine nucleotides degradation II (aerobic)	11	11	3
guanosine nucleotides degradation II	4	4	1
inosine 5'-phosphate degradation	4	4	1
guanosine nucleotides degradation III	4	4	1
adenosine nucleotides degradation I	8	7	2
purine nucleotides degradation I (plants)	12	10	3
guanosine nucleotides degradation I	4	3	1
adenosine nucleotides degradation II	5	5	1
superpathway of guanosine nucleotides degradation (plants)	6	5	1
superpathway of purines degradation in plants	18	14	3
pyrimidine deoxyribonucleotides de novo biosynthesis IV	7	6	1
ureide biosynthesis	7	6	1
pyrimidine deoxyribonucleotides biosynthesis from CTP	8	6	1
superpathway of methylglyoxal degradation	8	4	1
pyrimidine deoxyribonucleotides de novo biosynthesis I	9	9	1
pyrimidine deoxyribonucleotides de novo biosynthesis III	9	8	1
tunicamycin biosynthesis	9	2	1
NAD salvage (plants)	11	6	1
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis (E. coli)	14	12	1
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis	18	18	1