Experiment set3IT011 for Pseudomonas fluorescens FW300-N1B4

LB with Doxycycline hyclate 0.0001 mg/ml

Group: stress
Media: LB + Doxycycline hyclate (1e-04 mg/ml)
Culturing: pseudo1_N1B4_ML1, 48 well microplate; Tecan Infinite F200, Aerobic, at 26 (C), shaken=orbital
By: Mark on 12/15/2014
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride
Growth plate: 1039 E5,E6

Specific Phenotypes

For 23 genes in this experiment

For stress Doxycycline hyclate in Pseudomonas fluorescens FW300-N1B4

For stress Doxycycline hyclate across organisms

SEED Subsystems

Subsystem	#Specific
ABC transporter alkylphosphonate (TC 3.A.1.9.1)	1
Acid resistance mechanisms	1
Arginine and Ornithine Degradation	1
Aromatic amino acid degradation	1
Bacterial Cell Division	1
Bacterial Cytoskeleton	1
DNA-replication	1
Nudix proteins (nucleoside triphosphate hydrolases)	1
Peptidoglycan Biosynthesis	1
Polyamine Metabolism	1
Pterin biosynthesis	1
Siderophore Pyoverdine	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:

• Histidine metabolism
• Pentose and glucuronate interconversions
• Galactose metabolism
• Ubiquinone and menaquinone biosynthesis
• Urea cycle and metabolism of amino groups
• Purine metabolism
• Arginine and proline metabolism
• Tyrosine metabolism
• Phenylalanine metabolism
• Tryptophan metabolism
• Phenylalanine, tyrosine and tryptophan biosynthesis
• Benzoxazinone biosynthesis
• Starch and sucrose metabolism
• Nucleotide sugars metabolism
• Lipopolysaccharide biosynthesis
• Peptidoglycan biosynthesis
• Naphthalene and anthracene degradation
• Folate biosynthesis
• Porphyrin and chlorophyll metabolism
• Carotenoid biosynthesis - General
• Nitrogen metabolism
• Sulfur metabolism
• 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
L-tyrosine biosynthesis IV	1	1	1
arginine dependent acid resistance	1	1	1
L-phenylalanine degradation I (aerobic)	1	1	1
putrescine biosynthesis I	2	2	1
UDP-α-D-glucose biosynthesis	2	2	1
L-arginine degradation III (arginine decarboxylase/agmatinase pathway)	2	2	1
putrescine biosynthesis II	3	3	1
L-arginine degradation IV (arginine decarboxylase/agmatine deiminase pathway)	3	3	1
assimilatory sulfate reduction III	3	3	1
L-phenylalanine degradation V	3	2	1
assimilatory sulfate reduction I	4	4	1
L-histidine degradation I	4	4	1
superpathway of putrescine biosynthesis	4	3	1
spermidine biosynthesis III	4	1	1
L-histidine degradation II	5	5	1
sucrose degradation II (sucrose synthase)	5	4	1
L-histidine degradation III	6	4	1
superpathway of UDP-glucose-derived O-antigen building blocks biosynthesis	6	4	1
peptidoglycan maturation (meso-diaminopimelate containing)	12	4	2
stachyose degradation	7	2	1
L-histidine degradation VI	8	7	1
sucrose biosynthesis II	8	6	1
superpathway of polyamine biosynthesis II	8	5	1
superpathway of polyamine biosynthesis I	8	5	1
superpathway of sulfate assimilation and cysteine biosynthesis	9	9	1
sucrose biosynthesis I (from photosynthesis)	9	7	1
tunicamycin biosynthesis	9	2	1
superpathway of sulfur amino acid biosynthesis (Saccharomyces cerevisiae)	10	8	1
superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation	11	9	1
colanic acid building blocks biosynthesis	11	9	1
superpathway of L-methionine biosynthesis (by sulfhydrylation)	12	12	1
superpathway of L-arginine and L-ornithine degradation	13	11	1
superpathway of arginine and polyamine biosynthesis	17	14	1
peptidoglycan biosynthesis II (staphylococci)	17	12	1
peptidoglycan biosynthesis IV (Enterococcus faecium)	17	12	1
type I lipoteichoic acid biosynthesis (S. aureus)	17	5	1
superpathway of anaerobic sucrose degradation	19	15	1