Experiment set5IT056 for Shewanella loihica PV-4

LB with Fusidic acid sodium salt 0.0625 mg/ml

Group: stress
Media: LB + Fusidic acid sodium salt (0.0625 mg/ml)
Culturing: PV4_ML1, 48 well microplate; Tecan Infinite F200, Aerobic, at 25 (C), shaken=orbital
By: Adam on 4/30/2014
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride
Growth plate: 902 B7,B8

Specific Phenotypes

For 19 genes in this experiment

For stress Fusidic acid sodium salt in Shewanella loihica PV-4

For stress Fusidic acid sodium salt across organisms

SEED Subsystems

Subsystem	#Specific
DNA repair, bacterial MutL-MutS system	2
ATP-dependent RNA helicases, bacterial	1
DNA repair, bacterial	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Fatty acid biosynthesis
• Biosynthesis of unsaturated fatty acids
• Benzoate degradation via CoA ligation
• Limonene and pinene degradation
• Ubiquinone and menaquinone biosynthesis
• Lysine degradation
• Histidine metabolism
• Tyrosine metabolism
• Benzoate degradation via hydroxylation
• Phenylalanine, tyrosine and tryptophan biosynthesis
• Nucleotide sugars metabolism
• Peptidoglycan biosynthesis
• alpha-Linolenic acid metabolism
• 1- and 2-Methylnaphthalene degradation
• Butanoate metabolism
• Biotin metabolism
• Porphyrin and chlorophyll metabolism
• Nitrogen metabolism
• Biosynthesis of type II polyketide backbone
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
gondoate biosynthesis (anaerobic)	4	4	2
octanoyl-[acyl-carrier protein] biosynthesis (mitochondria, yeast)	12	9	6
palmitate biosynthesis III	29	21	13
palmitoleate biosynthesis I (from (5Z)-dodec-5-enoate)	9	9	4
tetradecanoate biosynthesis (mitochondria)	25	17	11
oleate biosynthesis IV (anaerobic)	14	13	6
palmitate biosynthesis II (type II fatty acid synthase)	31	29	13
superpathway of unsaturated fatty acids biosynthesis (E. coli)	20	20	8
cis-vaccenate biosynthesis	5	5	2
fatty acid elongation -- saturated	5	4	2
superpathway of fatty acids biosynthesis (E. coli)	53	50	21
8-amino-7-oxononanoate biosynthesis I	11	10	4
superpathway of fatty acid biosynthesis II (plant)	43	37	15
(5Z)-dodecenoate biosynthesis I	6	6	2
(5Z)-dodecenoate biosynthesis II	6	5	2
stearate biosynthesis II (bacteria and plants)	6	5	2
stearate biosynthesis IV	6	4	2
petroselinate biosynthesis	6	2	2
even iso-branched-chain fatty acid biosynthesis	34	24	11
odd iso-branched-chain fatty acid biosynthesis	34	24	11
anteiso-branched-chain fatty acid biosynthesis	34	24	11
superpathway of fatty acid biosynthesis I (E. coli)	16	13	5
biotin biosynthesis I	15	14	4
streptorubin B biosynthesis	34	20	9
L-histidine degradation I	4	4	1
fatty acid biosynthesis initiation (mitochondria)	4	2	1
8-amino-7-oxononanoate biosynthesis IV	5	4	1
superpathway of fatty acid biosynthesis initiation	5	3	1
L-histidine degradation II	5	3	1
L-histidine degradation III	6	4	1
L-histidine degradation VI	8	7	1
2-allylmalonyl-CoA biosynthesis	8	2	1
mycolate biosynthesis	205	20	9
superpathway of mycolate biosynthesis	239	21	9