Experiment set2IT008 for Echinicola vietnamensis KMM 6221, DSM 17526

marine broth with Carbenicillin disodium salt 0.2 mg/ml

Group: stress
Media: marine_broth_2216 + Carbenicillin disodium salt (0.2 mg/ml)
Culturing: Cola_ML5, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=700 rpm
Growth: about 4.5 generations
By: Adam on 8-May-17
Media components: 5 g/L Bacto Peptone, 1 g/L Yeast Extract, 0.1 g/L Ferric citrate, 19.45 g/L Sodium Chloride, 5.9 g/L Magnesium chloride hexahydrate, 3.24 g/L Magnesium sulfate, 1.8 g/L Calcium chloride, 0.55 g/L Potassium Chloride, 0.16 g/L Sodium bicarbonate, 0.08 g/L Potassium bromide, 34 mg/L Strontium chloride, 22 mg/L Boric Acid, 4 mg/L Sodium metasilicate, 2.4 mg/L sodium fluoride, 8 mg/L Disodium phosphate
Growth plate: 1721 C3

Specific Phenotypes

For 43 genes in this experiment

For stress Carbenicillin disodium salt in Echinicola vietnamensis KMM 6221, DSM 17526

For stress Carbenicillin disodium salt across organisms

SEED Subsystems

Subsystem	#Specific
Queuosine-Archaeosine Biosynthesis	2
Rhamnose containing glycans	2
Ammonia assimilation	1
Beta-lactamase	1
Chitin and N-acetylglucosamine utilization	1
D-Galacturonate and D-Glucuronate Utilization	1
De Novo Pyrimidine Synthesis	1
Folate Biosynthesis	1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis	1
Iron acquisition in Vibrio	1
LMPTP YwlE cluster	1
N-Acetyl-Galactosamine and Galactosamine Utilization	1
N-linked Glycosylation in Bacteria	1
NAD and NADP cofactor biosynthesis global	1
NAD regulation	1
Predicted carbohydrate hydrolases	1
Purine conversions	1
Ton and Tol transport systems	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Purine metabolism
• Nucleotide sugars metabolism
• Glycosaminoglycan degradation
• Glycosphingolipid biosynthesis - globo series
• Glycosphingolipid biosynthesis - ganglio series
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Pentose and glucuronate interconversions
• Fructose and mannose metabolism
• Ascorbate and aldarate metabolism
• Ubiquinone and menaquinone biosynthesis
• Pyrimidine metabolism
• Glutamate metabolism
• Penicillin and cephalosporin biosynthesis
• beta-Lactam resistance
• Cyanoamino acid metabolism
• Starch and sucrose metabolism
• N-Glycan biosynthesis
• Other glycan degradation
• O-Glycan biosynthesis
• High-mannose type N-glycan biosynthesis
• O-Mannosyl glycan biosynthesis
• Aminosugars metabolism
• Keratan sulfate biosynthesis
• Lipopolysaccharide biosynthesis
• Peptidoglycan biosynthesis
• Glycerolipid metabolism
• Glycosylphosphatidylinositol(GPI)-anchor biosynthesis
• Sphingolipid metabolism
• Glycosphingolipid biosynthesis - lacto and neolacto series
• Nicotinate and nicotinamide metabolism
• Carotenoid biosynthesis - General
• Zeatin biosynthesis
• Nitrogen metabolism
• Phenylpropanoid biosynthesis
• Flavonoid biosynthesis
• Anthocyanin biosynthesis
• Flavone and flavonol biosynthesis
• Drug metabolism - other enzymes
• Biosynthesis of alkaloids derived from histidine and purine
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-glutamate biosynthesis I	2	2	2
L-glutamine degradation II	1	1	1
pyrimidine nucleobases salvage I	1	1	1
L-glutamine degradation I	1	1	1
ammonia assimilation cycle III	3	3	2
neolinustatin bioactivation	3	2	2
guanine and guanosine salvage I	2	2	1
pyrimidine nucleobases salvage II	2	2	1
xanthine and xanthosine salvage	2	2	1
linustatin bioactivation	4	2	2
guanine and guanosine salvage II	2	1	1
lotaustralin degradation	2	1	1
linamarin degradation	2	1	1
superpathway of guanine and guanosine salvage	3	2	1
cellulose degradation II (fungi)	3	2	1
adenine salvage	3	2	1
β-D-glucuronide and D-glucuronate degradation	3	2	1
chitin degradation II (Vibrio)	6	3	2
L-glutamate and L-glutamine biosynthesis	7	7	2
glutaminyl-tRNAgln biosynthesis via transamidation	4	4	1
NAD biosynthesis from 2-amino-3-carboxymuconate semialdehyde	4	4	1
superpathway of pyrimidine nucleobases salvage	4	4	1
L-asparagine biosynthesis III (tRNA-dependent)	4	3	1
adenine and adenosine salvage III	4	3	1
queuosine biosynthesis I (de novo)	4	2	1
D-galacturonate degradation I	5	5	1
superpathway of hexuronide and hexuronate degradation	10	9	2
pectin degradation II	5	4	1
coumarin biosynthesis (via 2-coumarate)	5	2	1
queuosine biosynthesis III (queuosine salvage)	5	2	1
NAD de novo biosynthesis I	6	4	1
NAD de novo biosynthesis IV (anaerobic)	6	4	1
NAD de novo biosynthesis III	6	4	1
α-tomatine degradation	6	1	1
superpathway of β-D-glucuronosides degradation	7	6	1
chitin degradation III (Serratia)	7	3	1
L-citrulline biosynthesis	8	8	1
NAD de novo biosynthesis II (from tryptophan)	9	8	1
nicotine biosynthesis	9	1	1
superpathway of pyrimidine ribonucleosides salvage	10	9	1
peptidoglycan recycling II	10	3	1
superpathway of L-citrulline metabolism	12	10	1
superpathway of nicotine biosynthesis	12	2	1
superpathway of purine nucleotide salvage	14	12	1
superpathway of NAD biosynthesis in eukaryotes	14	11	1
peptidoglycan recycling I	14	8	1
firefly bioluminescence	14	2	1
superpathway of microbial D-galacturonate and D-glucuronate degradation	31	14	2
aspartate superpathway	25	20	1