Experiment set9S258 for Pseudomonas aeruginosa MRSN321

LB with copper (II) chloride dihydrate 3.34447058823529 mM

Group: stress
Media: LB + copper (II) chloride dihydrate (3.344471 mM), pH=7
Culturing: Paeruginosa_MRSN321_ML2, 96 deep-well block, Aerobic, at 30 (C), shaken=700 rpm
By: Hans and Ryan on 1/27/26
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride

Specific Phenotypes

For 35 genes in this experiment

For stress copper (II) chloride dihydrate in Pseudomonas aeruginosa MRSN321

For stress copper (II) chloride dihydrate across organisms

SEED Subsystems

Subsystem	#Specific
Copper homeostasis	2
Experimental tye	2
Heme and Siroheme Biosynthesis	2
Terminal cytochrome O ubiquinol oxidase	2
Terminal cytochrome oxidases	2
Biogenesis of cytochrome c oxidases	1
Cobalt-zinc-cadmium resistance	1
Flagellar motility	1
Flagellum	1
Lysine degradation	1
Potassium homeostasis	1
Queuosine-Archaeosine Biosynthesis	1
Serine-glyoxylate cycle	1
SigmaB stress responce regulation	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Porphyrin and chlorophyll metabolism
• Carotenoid biosynthesis - General
• Ubiquinone and menaquinone biosynthesis
• Tryptophan metabolism
• Flavonoid biosynthesis
• Anthocyanin biosynthesis
• Biosynthesis of terpenoids and steroids
• Biosynthesis of alkaloids derived from shikimate pathway
• Citrate cycle (TCA cycle)
• Fructose and mannose metabolism
• Photosynthesis
• Methionine metabolism
• Histidine metabolism
• Tyrosine metabolism
• Benzoxazinone biosynthesis
• N-Glycan biosynthesis
• O-Glycan biosynthesis
• High-mannose type N-glycan biosynthesis
• O-Mannosyl glycan biosynthesis
• Keratan sulfate biosynthesis
• Lipopolysaccharide biosynthesis
• Peptidoglycan biosynthesis
• Glycerolipid metabolism
• Glycosylphosphatidylinositol(GPI)-anchor biosynthesis
• Sphingolipid metabolism
• Glycosphingolipid biosynthesis - lacto and neolacto series
• Glycosphingolipid biosynthesis - globo series
• Glycosphingolipid biosynthesis - ganglio series
• Naphthalene and anthracene degradation
• Glyoxylate and dicarboxylate metabolism
• Reductive carboxylate cycle (CO2 fixation)
• Riboflavin metabolism
• Terpenoid biosynthesis
• Zeatin biosynthesis
• Phenylpropanoid biosynthesis
• Flavone and flavonol biosynthesis
• Alkaloid biosynthesis I
• Insect hormone biosynthesis
• Biosynthesis of phenylpropanoids
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Biosynthesis of alkaloids derived from histidine and purine
• Biosynthesis of alkaloids derived from terpenoid and polyketide
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
siroheme biosynthesis	4	4	2
NADH to cytochrome bo oxidase electron transfer I	2	2	1
glycerol-3-phosphate to cytochrome bo oxidase electron transfer	2	2	1
NADH to cytochrome bo oxidase electron transfer II	2	2	1
succinate to cytochrome bo oxidase electron transfer	2	2	1
pyruvate to cytochrome bo oxidase electron transfer	2	2	1
D-lactate to cytochrome bo oxidase electron transfer	2	1	1
proline to cytochrome bo oxidase electron transfer	2	1	1
glyoxylate cycle	6	6	2
5-(methoxycarbonylmethoxy)uridine biosynthesis	3	1	1
factor 430 biosynthesis	7	3	2
partial TCA cycle (obligate autotrophs)	8	8	2
nitrogen remobilization from senescing leaves	8	6	2
tetrapyrrole biosynthesis II (from glycine)	4	3	1
heme b biosynthesis II (oxygen-independent)	4	3	1
heme a biosynthesis	4	2	1
NADPH to cytochrome c oxidase via plastocyanin (thylakoid membrane)	4	1	1
photosynthesis light reactions	4	1	1
TCA cycle V (2-oxoglutarate synthase)	9	8	2
TCA cycle IV (2-oxoglutarate decarboxylase)	9	7	2
TCA cycle VII (acetate-producers)	9	7	2
TCA cycle VI (Helicobacter)	9	7	2
TCA cycle II (plants and fungi)	9	7	2
TCA cycle I (prokaryotic)	10	9	2
TCA cycle III (animals)	10	7	2
reductive TCA cycle I	11	7	2
tetrapyrrole biosynthesis I (from glutamate)	6	6	1
superpathway of glyoxylate bypass and TCA	12	11	2
superpathway of heme b biosynthesis from uroporphyrinogen-III	6	4	1
reductive TCA cycle II	12	6	2
superpathway of photosynthetic hydrogen production	6	2	1
cob(II)yrinate a,c-diamide biosynthesis II (late cobalt incorporation)	13	12	2
superpathway of glyoxylate cycle and fatty acid degradation	14	12	2
cob(II)yrinate a,c-diamide biosynthesis I (early cobalt insertion)	15	13	2
mixed acid fermentation	16	13	2
superpathway of heme b biosynthesis from glycine	8	6	1
ethene biosynthesis V (engineered)	25	18	3
3,8-divinyl-chlorophyllide a biosynthesis II (anaerobic)	9	3	1
methylaspartate cycle	19	10	2
superpathway of heme b biosynthesis from glutamate	10	9	1
adenosylcobalamin biosynthesis II (aerobic)	33	30	3
superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle	22	18	2
adenosylcobalamin biosynthesis I (anaerobic)	36	29	3
superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass	26	22	2
superpathway of bacteriochlorophyll a biosynthesis	26	6	2
oxygenic photosynthesis	17	11	1
photosynthetic 3-hydroxybutanoate biosynthesis (engineered)	26	19	1
1-butanol autotrophic biosynthesis (engineered)	27	19	1