Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
BioCyc websites down
12/28 - 12/31
for maintenance.
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
BioCyc websites down
12/28 - 12/31
for maintenance.
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
BioCyc websites down
12/28 - 12/31
for maintenance.
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
BioCyc websites down
12/28 - 12/31
for maintenance.
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
BioCyc websites down
12/28 - 12/31
for maintenance.
twitter

Escherichia coli K-12 substr. MG1655 Class: Growth-Media

Description: This page lists all growth media defined in this database.

Tables are colored to show growth on

Generate heatmap comparing growth on different nutrient sources for different knockouts or other experimental conditions:


Knocked out gene (leave blank for wildtype):
Only show data that differs from wildtype
Show all data
Nutrient type:

Conditions to compare (select at least one):
Gene Knockouts
Aerobic/Anaerobic

Genes to include:
All knockouts with data different then wildtype
Selected genes

Growth Condition:

Exclude rows for nutrients that show no change?
Exclude columns for which all data are same as wildtype?

Results will appear in a new tab.

Individual Growth Media

No growth/respirationLow growth/respirationGrowth/respirationInconsistent resultsNo data
Conditions: wildtype at 37°C (aerobic)
Medium Name pH Computed Osmolarity (Osm/L) Knockout Data Available? Anaerobic Data Available? Data for other Temperatures Available?
AB medium base   0.32      
AB medium with 0.2% glucose   0.33      
AB medium with 0.4% acetate   0.39      
ATCC medium 57 7.1 0.26      
Bochner defined minimal medium   0.33      
Davis and Mingioli glucose minimal medium   0.2      
Davis and Mingioli medium A 7.0 0.2      
Davis and Mingioli Modified medium 7.0        
E.coli minimal growth on acetate (example)          
E.coli minimal growth on glucose (example)          
Gutnick minimal salts medium base   0.11      
Gutnick minimal salts medium base + 2'-deoxyinosine          
Gutnick minimal salts medium base + N-acetyl-D-glucosamine          
Gutnick minimal salts medium base + N-acetylneuraminate          
Gutnick minimal salts medium base + arg          
Gutnick minimal salts medium base + asn          
Gutnick minimal salts medium base + asp          
Gutnick minimal salts medium base + cyanate          
Gutnick minimal salts medium base + D-alanine          
Gutnick minimal salts medium base + D-glucosamine          
Gutnick minimal salts medium base + ethyl-4-aminobutyrate          
Gutnick minimal salts medium base + gln          
Gutnick minimal salts medium base + glt          
Gutnick minimal salts medium base + gly          
Gutnick minimal salts medium base + inosine          
Gutnick minimal salts medium base + L-ornithine          
Gutnick minimal salts medium base + orotate          
Gutnick minimal salts medium base + putrescine          
Gutnick minimal salts medium base + thr          
Gutnick minimal salts medium base + trp          
Gutnick minimal salts medium base + xanthine          
Gutnick minimal salts medium base + xanthosine          
LB enriched 6.95   3082 genes    
LB Lennox 7   4168 genes    
M56 medium 7.0 0.33      
M63 medium base 7 0.25      
M63 medium with 2% glucose 7 0.36      
M63 medium with 2% glycerol 7 0.46      
M9 medium base 7.2 0.24      
M9 medium with 0.4% glucose 7.2 0.27 106 genes    
M9 medium with 1% glycerol 7.2 0.35 3818 genes    
M9 medium with 2% glycerol 7.2 0.46      
MOPS medium base 7.2 0.19      
MOPS medium with 0.4% glucose 7.2 0.22 3843 genes    
MOPS medium with 2% glucose 7.2 0.31      
MOPS medium with 2% glycerol 7.2 0.41      
Neidhardt EZ rich defined medium 7.2 0.24      
trace metal solution   5.1      

Phenotype Microarray Plates:


Plate ID: Biolog PM1 - Carbon Sources

No growth/respirationLow growth/respirationGrowth/respirationInconsistent resultsNo data
Conditions: wildtype at 37°C (aerobic); 5 Datasets; Growth: 69; Low Growth: 2; No Growth: 19; Inconsistent results: 5.
A1
carbon negative control
A2
L-Arabinose
A3
N-Acetyl-D- Glucosamine
A4
D-Saccharic acid
A5
Succinic acid
A6
D-Galactose
A7
L-Aspartic acid
A8
L-Proline
A9
D-Alanine
A10
D-Trehalose
A11
D-Mannose
A12
Dulcitol
B1
D-Serine
B2
D-Sorbitol
B3
Glycerol
B4
L-Fucose
B5
D-Glucuronic acid
B6
D-Gluconic acid
B7
DL-α-Glycerol Phosphate
B8
D-Xylose
B9
L-Lactic acid
B10
Formic acid
B11
D-Mannitol
B12
L-Glutamic acid
C1
D-Glucose- 6-Phosphate
C2
D-Galactonic acid-γ-Lactone
C3
DL-Malic acid
C4
D-Ribose
C5
Tween 20
C6
L-Rhamnose
C7
D-Fructose
C8
Acetic acid
C9
α-D- Glucose
C10
Maltose
C11
D-Melibiose
C12
Thymidine
D1
L-Asparagine
D2
D-Aspartic acid
D3
D-Glucosaminic acid
D4
1,2-Propanediol
D5
Tween 40
D6
α-Ketoglutaric acid
D7
α-Ketobutyric acid
D8
α-Methyl-D- Galactoside
D9
α-D- Lactose
D10
Lactulose
D11
Sucrose
D12
Uridine
E1
L-Glutamine
E2
M-Tartaric acid
E3
D-Glucose- 1-Phosphate
E4
D-Fructose- 6-Phosphate
E5
Tween 80
E6
α-Hydroxyglutaric acid-γ-Lactone
E7
α-Hydroxybutyric acid
E8
β-Methyl-D- Glucoside
E9
Adonitol
E10
Maltotriose
E11
2-Deoxyadenosine
E12
Adenosine
F1
Gly-Asp
F2
Citric acid
F3
M-Inositol
F4
D-Threonine
F5
Fumaric acid
F6
Bromosuccinic acid
F7
Propionic acid
F8
Mucic acid
F9
Glycolic acid
F10
Glyoxylic acid
F11
D-Cellobiose
F12
Inosine
G1
Gly-Glu
G2
Tricarballylic acid
G3
L-Serine
G4
L-Threonine
G5
L-Alanine
G6
Ala-Gly
G7
Acetoacetic acid
G8
N-Acetyl-D- Mannosamine
G9
Mono-Methylsuccinate
G10
Methylpyruvate
G11
D-Malic acid
G12
L-Malic acid
H1
Gly-Pro
H2
p-Hydroxyphenyl Acetic acid
H3
m-Hydroxyphenyl Acetic acid
H4
Tyramine
H5
D-Psicose
H6
L-Lyxose
H7
Glucuronamide
H8
Pyruvic acid
H9
L-Galactonic acid-γ-Lactone
H10
D-Galacturonic acid
H11
Phenylethylamine
H12
2-Aminoethanol


Plate ID: Biolog PM2 - Carbon Sources

No growth/respirationLow growth/respirationGrowth/respirationInconsistent resultsNo data
Conditions: wildtype at 37°C (aerobic); 4 Datasets; Growth: 11; No Growth: 80; Inconsistent results: 4.
A2
Chondroitin Sulfate C
A3
α-Cyclodextrin
A4
β-Cyclodextrin
A5
γ-Cyclodextrin
A6
Dextrin
A7
Gelatin
A8
Glycogen
A9
Inulin
A10
Laminarin
A11
Mannan
A12
Pectin
B1
N-Acetyl-D- Galactosamine
B2
N-Acetyl- Neuraminic acid
B3
β-D- Allose
B4
Amygdalin
B5
D-Arabinose
B6
D-Arabitol
B7
L-Arabitol
B8
Arbutin
B9
2-Deoxy- D-Ribose
B10
i-Erythritol
B11
D-Fucose
B12
3-O-β-D-Galactopyranosyl- D-Arabinose
C1
Gentiobiose
C2
L-Glucose
C3
D-Lactitol
C4
D-Melezitose
C5
Maltitol
C6
α-Methyl-D- Glucoside
C7
β-Methyl-D- Galactoside
C8
3-Methylglucose
C9
β-Methyl-D- Glucuronic acid
C10
α-Methyl-D- Mannoside
C11
β-Methyl- D-Xyloside
C12
Palatinose
D1
D-Raffinose
D2
Salicin
D3
Sedoheptulosan
D4
L-Sorbose
D5
Stachyose
D6
D-Tagatose
D7
Turanose
D8
Xylitol
D9
N-Acetyl-D- Glucosaminitol
D10
γ-Amino- N-Butyric acid
D11
δ-Amino Valeric acid
D12
Butyric acid
E1
Capric acid
E2
Caproic acid
E3
Citraconic acid
E4
Citramalic acid
E5
D-Glucosamine
E6
2-Hydroxybenzoic acid
E7
4-Hydroxybenzoic acid
E8
β-Hydroxybutyric acid
E9
γ-Hydroxybutyric acid
E10
α-Keto- Valeric acid
E11
Itaconic acid
E12
5-Keto-D- Gluconic acid
F1
D-Lactic acid Methyl Ester
F2
Malonic acid
F3
Melibionic acid
F4
Oxalic acid
F5
Oxalomalic acid
F6
Quinic acid
F7
D-Ribono- 1,4-Lactone
F8
Sebacic acid
F9
Sorbic acid
F10
Succinamic acid
F11
D-Tartaric acid
F12
L-Tartaric acid
G1
Acetamide
G2
L-Alaninamide
G3
N-Acetyl-L- Glutamic acid
G4
L-Arginine
G5
Glycine
G6
L-Histidine
G7
L-Homoserine
G8
Hydroxy- L-Proline
G9
L-Isoleucine
G10
L-Leucine
G11
L-Lysine
G12
L-Methionine
H1
L-Ornithine
H2
L-Phenylalanine
H3
L-Pyroglutamic acid
H4
L-Valine
H5
D,L-Carnitine
H6
sec-Butylamine
H7
D,L-Octopamine
H8
Putrescine
H9
Dihydroxyacetone
H10
2,3-Butanediol
H11
2,3-Butanedione
H12
3-Hydroxy- 2-butanone


Plate ID: Biolog PM3 - Nitrogen Sources

No growth/respirationLow growth/respirationGrowth/respirationInconsistent resultsNo data
Conditions: wildtype at 37°C (aerobic); 4 Datasets; Growth: 32; No Growth: 38; Inconsistent results: 25.
A1
nitrogen negative control
A2
Ammonia
A3
Nitrite
A4
Nitrate
A5
Urea
A6
Biuret
A7
L-Alanine
A8
L-Arginine
A9
L-Asparagine
A10
L-Aspartic acid
A11
L-Cysteine
A12
L-Glutamic acid
B1
L-Glutamine
B2
Glycine
B3
L-Histidine
B4
L-Isoleucine
B5
L-Leucine
B6
L-Lysine
B7
L-Methionine
B8
L-Phenylalanine
B9
L-Proline
B10
L-Serine
B11
L-Threonine
B12
L-Tryptophan
C1
L-Tyrosine
C2
L-Valine
C3
D-Alanine
C4
D-Asparagine
C5
D-Aspartic acid
C6
D-Glutamic acid
C7
D-Lysine
C8
D-Serine
C9
D-Valine
C10
L-Citrulline
C11
L-Homoserine
C12
L-Ornithine
D1
N-Acetyl-L- Glutamic acid
D2
N-Phthaloyl-L- Glutamic acid
D3
L-Pyroglutamic acid
D4
Hydroxylamine
D5
Methylamine
D6
N-Amylamine
D7
N-Butylamine
D8
Ethylamine
D9
Ethanolamine
D10
Ethylenediamine
D11
Putrescine
D12
Agmatine
E1
Histamine
E2
b-Phenylethylamine
E3
Tyramine
E4
Acetamide
E5
Formamide
E6
Glucuronamide
E7
DL-Lactamide
E8
D-Glucosamine
E9
D-Galactosamine
E10
D-Mannosamine
E11
N-Acetyl-D- Glucosamine
E12
N-Acetyl-D- Galactosamine
F1
N-Acetyl-D- Mannosamine
F2
Adenine
F3
Adenosine
F4
Cytidine
F5
Cytosine
F6
Guanine
F7
Guanosine
F8
Thymine
F9
Thymidine
F10
Uracil
F11
Uridine
F12
Inosine
G1
Xanthine
G2
Xanthosine
G3
Uric acid
G4
Alloxan
G5
Allantoin
G6
Parabanic acid
G7
DL-α- Amino-N- Butyric acid
G8
γ-Amino- N-Butyric acid
G9
ε-Amino- N-Caproic acid
G10
DL-α- Amino- Caprylic acid
G11
δ-Amino- N-Valeric acid
G12
α-Amino- N-Valeric acid
H1
Ala-Asp
H2
Ala-Gln
H3
Ala-Glu
H4
Ala-Gly
H5
Ala-His
H6
Ala-Leu
H7
Ala-Thr
H8
Gly-Asn
H9
Gly-Gln
H10
Gly-Glu
H11
Gly-Met
H12
Met-Ala


Plate ID: Biolog PM4 - Phosphorus and Sulfur Sources

No growth/respirationLow growth/respirationGrowth/respirationInconsistent resultsNo data
Conditions: wildtype at 37°C (aerobic); 4 Datasets; Growth: 73; No Growth: 9; Inconsistent results: 12.
A1
phosphorus negative control
A2
Phosphate
A3
Pyrophosphate
A4
Trimetaphosphate
A5
Tripolyphosphate
A6
Triethyl Phosphate
A7
Hypophosphite
A8
Adenosine 2'- Monophosphate
A9
Adenosine 3'- Monophosphate
A10
Adenosine 5'- Monophosphate
A11
Adenosine 2',3'-Cyclic Monophosphate
A12
Adenosine 3',5'-Cyclic Monophosphate
B1
Thiophosphate
B2
Dithiophosphate
B3
DL-α-Glycerol Phosphate
B4
β-Glycerol Phosphate
B5
Carbamyl Phosphate
B6
D-2-Phospho- Glyceric acid
B7
D-3-Phospho- Glyceric acid
B8
Guanosine 2'- Monophosphate
B9
Guanosine 3'- Monophosphate
B10
Guanosine 5'- Monophosphate
B11
Guanosine 2',3'-Cyclic Monophosphate
B12
Guanosine 3',5'-Cyclic Monophosphate
C1
Phosphoenol Pyruvate
C2
Phospho- Glycolic acid
C3
D-Glucose- 1-Phosphate
C4
D-Glucose- 6-Phosphate
C5
2-Deoxy-D- Glucose 6- Phosphate
C6
D-Glucosamine- 6-Phosphate
C7
6-Phospho- Gluconic acid
C8
Cytidine 2'- Monophosphate
C9
Cytidine 3'- Monophosphate
C10
Cytidine 5'- Monophosphate
C11
Cytidine 2',3'-Cyclic Monophosphate
C12
Cytidine 3',5'-Cyclic Monophosphate
D1
D-Mannose- 1-Phosphate
D2
D-Mannose- 6-Phosphate
D3
Cysteamine- S-Phosphate
D4
Phospho- L-Arginine
D5
O-Phospho- D-Serine
D6
O-Phospho- L-Serine
D7
O-Phospho- L-Threonine
D8
Uridine 2'- Monophosphate
D9
Uridine 3'- Monophosphate
D10
Uridine 5'- Monophosphate
D11
Uridine 2',3'-Cyclic Monophosphate
D12
Uridine 3',5'-Cyclic Monophosphate
E1
O-Phospho- D-Tyrosine
E2
O-Phospho- L-Tyrosine
E3
Phosphocreatine
E4
Phosphoryl Choline
E5
O-Phosphoryl- Ethanolamine
E6
Phosphono Acetic acid
E7
2-Aminoethyl Phosphonic acid
E8
Methylene Diphosphonic acid
E9
Thymidine 3'- Monophosphate
E10
Thymidine 5'- Monophosphate
E11
Inositol Hexaphosphate
E12
Thymidine 3',5'-Cyclic Monophosphate
F1
sulfur negative control
F2
Sulfate
F3
Thiosulfate
F4
Tetrathionate
F5
Thiophosphate
F6
Dithiophosphate
F7
L-Cysteine
F8
D-Cysteine
F9
Cys-Gly
F10
L-Cysteic acid
F11
Cysteamine
F12
L-Cysteine Sulfinic acid
G1
N-Acetyl- L-Cysteine
G2
S-Methyl- L-Cysteine
G3
Cystathionine
G4
Lanthionine
G5
Glutathione
G6
DL-Ethionine
G7
L-Methionine
G8
D-Methionine
G9
Gly-Met
G10
N-Acetyl-D,L- Methionine
G11
L-Methionine Sulfoxide
G12
L-Methionine Sulfone
H1
L-Djenkolic acid
H2
Thiourea
H3
1-Thio-β- D-Glucose
H4
DL-Lipoamide
H5
Taurocholic acid
H6
Taurine
H7
Hypotaurine
H8
p-Aminobenzene Sulfonic acid
H9
Butane Sulfonic acid
H10
2-Hydroxyethane Sulfonic acid
H11
Methane Sulfonic acid
H12
Tetramethylene Sulfone

Report Errors or Provide Feedback
Please cite the following article in publications resulting from the use of EcoCyc: Nucleic Acids Research 41:D605-12 2013
Page generated by SRI International Pathway Tools version 18.5 on Sun Dec 21, 2014, biocyc14.