Experiment set1IT022 for Cupriavidus basilensis FW507-4G11

R2A with Vancomycin Hydrochloride Hydrate 0.5 mg/ml

Group: stress
Media: R2A + Vancomycin Hydrochloride Hydrate (0.5 mg/ml)
Culturing: cupriavidus_4G11_ML11, 48 well microplate; Tecan Infinite F200, Aerobic, at 25 (C), shaken=orbital
By: Mark on 3/3/2015
Media components: 0.5 g/L Bacto Peptone, 0.5 g/L casamino acids, 0.5 g/L Yeast Extract, 0.5 g/L D-Glucose, 0.5 g/L Starch, 0.3 g/L Potassium phosphate dibasic, 0.05 g/L Magnesium Sulfate Heptahydrate, 0.3 g/L Sodium pyruvate
Growth plate: 1176 A3,A4

Specific Phenotypes

For 26 genes in this experiment

For stress Vancomycin Hydrochloride Hydrate in Cupriavidus basilensis FW507-4G11

For stress Vancomycin Hydrochloride Hydrate across organisms

SEED Subsystems

Subsystem	#Specific
Peptidoglycan Biosynthesis	2
Bacterial Cell Division	1
Bacterial Cytoskeleton	1
Beta-lactamase	1
Carotenoids	1
Hemin transport system	1
Methionine Biosynthesis	1
Methionine Degradation	1
Proteolysis in bacteria, ATP-dependent	1
Quorum Sensing: Autoinducer-2 Synthesis	1
Type IV pilus	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Peptidoglycan biosynthesis
• Carotenoid biosynthesis - General
• Biosynthesis of terpenoids and steroids
• Biosynthesis of plant hormones
• Lysine degradation
• Lipopolysaccharide biosynthesis
• Glycerophospholipid metabolism
• Glycosphingolipid biosynthesis - ganglio series
• Anthocyanin biosynthesis
• Fructose and mannose metabolism
• Fatty acid biosynthesis
• Fatty acid metabolism
• Biosynthesis of steroids
• Methionine metabolism
• Histidine metabolism
• Tyrosine metabolism
• Phenylalanine metabolism
• Selenoamino acid metabolism
• N-Glycan biosynthesis
• O-Glycan biosynthesis
• High-mannose type N-glycan biosynthesis
• O-Mannosyl glycan biosynthesis
• Keratan sulfate biosynthesis
• Glycerolipid metabolism
• Glycosylphosphatidylinositol(GPI)-anchor biosynthesis
• Ether lipid metabolism
• Sphingolipid metabolism
• Glycosphingolipid biosynthesis - lacto and neolacto series
• Glycosphingolipid biosynthesis - globo series
• 1- and 2-Methylnaphthalene degradation
• Benzoate degradation via CoA ligation
• Ethylbenzene degradation
• Butanoate metabolism
• Biotin metabolism
• Limonene and pinene degradation
• Diterpenoid biosynthesis
• Zeatin biosynthesis
• Flavonoid biosynthesis
• Flavone and flavonol biosynthesis
• Alkaloid biosynthesis I
• Alkaloid biosynthesis II
• Biosynthesis of unsaturated fatty acids
• Biosynthesis of type II polyketide backbone
• Biosynthesis of alkaloids derived from terpenoid and polyketide

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
S-adenosyl-L-methionine biosynthesis	1	1	1
epoxysqualene biosynthesis	3	2	2
neurosporene biosynthesis	5	2	2
S-adenosyl-L-methionine salvage II	3	3	1
L-methionine degradation I (to L-homocysteine)	3	2	1
trans-lycopene biosynthesis I	6	2	2
ethene biosynthesis I (plants)	3	1	1
alkane biosynthesis I	3	1	1
heptadecane biosynthesis	3	1	1
S-adenosyl-L-methionine salvage I	4	3	1
trans-lycopene biosynthesis II (oxygenic phototrophs and green sulfur bacteria)	8	3	2
peptidoglycan maturation (meso-diaminopimelate containing)	12	4	3
β-carotene biosynthesis (engineered)	8	2	2
2'-deoxymugineic acid phytosiderophore biosynthesis	4	1	1
superpathway of L-cysteine biosynthesis (mammalian)	5	2	1
Salmonella enterica serotype O:3,10 O antigen biosynthesis	5	1	1
peptidoglycan biosynthesis II (staphylococci)	17	12	3
peptidoglycan biosynthesis IV (Enterococcus faecium)	17	12	3
Salmonella enterica serotype O:4 O antigen biosynthesis (group B1)	6	1	1
Salmonella enterica serotype O:9,46 O antigen biosynthesis	6	1	1
Porphyromonas gingivalis O-LPS antigen biosynthesis	6	1	1
Salmonella enterica serotype O:2 O antigen biosynthesis	6	1	1
Salmonella enterica serotype O:9 O antigen biosynthesis	6	1	1
L-cysteine biosynthesis VI (reverse transsulfuration)	7	3	1
lycopadiene biosynthesis	7	1	1
cholesterol biosynthesis III (via desmosterol)	16	2	2
cholesterol biosynthesis I	16	2	2
cholesterol biosynthesis II (via 24,25-dihydrolanosterol)	16	2	2
Salmonella enterica serotype O:8 O antigen biosynthesis	8	1	1
peptidoglycan biosynthesis V (β-lactam resistance)	17	11	2
superpathway of S-adenosyl-L-methionine biosynthesis	9	7	1
Salmonella enterica serotype O:9,46,27 O antigen biosynthesis	9	1	1
4,4'-diapolycopenedioate biosynthesis	9	1	1
botryococcenes and methylated squalene biosynthesis	9	1	1
staphyloxanthin biosynthesis	9	1	1
L-methionine salvage cycle III	11	3	1
L-methionine salvage cycle II (plants)	11	2	1
mycobactin biosynthesis	11	2	1
superpathway of carotenoid biosynthesis in plants	22	3	2
peptidoglycan biosynthesis I (meso-diaminopimelate containing)	12	11	1
L-methionine salvage cycle I (bacteria and plants)	12	4	1
superpathway of ergosterol biosynthesis II	26	11	2
superpathway of ergosterol biosynthesis I	26	5	2
hopanoid biosynthesis (bacteria)	14	4	1
succinoglycan biosynthesis	14	1	1
peptidoglycan biosynthesis III (mycobacteria)	15	11	1
superpathway of L-methionine salvage and degradation	16	7	1
superpathway of cholesterol biosynthesis	38	5	2
aspartate superpathway	25	23	1