Experiment set4IT054 for Agrobacterium fabrum C58

R2A with Gentamicin sulfate salt 0.00125 mM

Group: stress
Media: R2A + Gentamicin sulfate salt (0.00125 mM)
Culturing: Agro_ML11, 96 deep-well microplate; 0.8 mL volume, Aerobic, at 28 (C), shaken=200 rpm
By: Hans Carlson and Mitchell Thompson on 22-Jun-21
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: 4 A8

Specific Phenotypes

For 14 genes in this experiment

For stress Gentamicin sulfate salt in Agrobacterium fabrum C58

For stress Gentamicin sulfate salt across organisms

SEED Subsystems

Subsystem	#Specific
Hfl operon	2
Glutamate dehydrogenases	1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis	1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria	1
Heat shock dnaK gene cluster extended	1
Maltose and Maltodextrin Utilization	1
Phosphate metabolism	1
ZZ gjo need homes	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Galactose metabolism
• Glutamate metabolism
• Lysine degradation
• Arginine and proline metabolism
• Starch and sucrose metabolism
• Peptidoglycan biosynthesis
• Glycerolipid metabolism
• Glycerophospholipid metabolism
• Biotin metabolism
• Nitrogen metabolism
• Sulfur metabolism

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-glutamate degradation I	1	1	1
phospholipid remodeling (phosphatidate, yeast)	2	1	1
palmitoleate biosynthesis III (cyanobacteria)	2	1	1
L-alanine degradation II (to D-lactate)	3	3	1
oleate biosynthesis III (cyanobacteria)	3	2	1
starch degradation I	3	1	1
ethene biosynthesis IV (engineered)	3	1	1
CDP-diacylglycerol biosynthesis I	4	4	1
CDP-diacylglycerol biosynthesis II	4	4	1
CDP-diacylglycerol biosynthesis III	5	4	1
phosphatidate biosynthesis (yeast)	5	3	1
phosphatidylglycerol biosynthesis I	6	6	1
phosphatidylglycerol biosynthesis II	6	6	1
superpathway of phospholipid biosynthesis III (E. coli)	12	10	2
superpathway of stearidonate biosynthesis (cyanobacteria)	6	2	1
palmitoyl ethanolamide biosynthesis	6	2	1
diacylglycerol and triacylglycerol biosynthesis	7	3	1
stigma estolide biosynthesis	7	2	1
4-aminobutanoate degradation V	7	2	1
L-glutamate degradation XI (reductive Stickland reaction)	7	1	1
glycogen degradation I	8	6	1
anandamide biosynthesis II	8	2	1
L-glutamate degradation V (via hydroxyglutarate)	10	4	1
anandamide biosynthesis I	12	3	1
superpathway of cardiolipin biosynthesis (bacteria)	13	10	1
superpathway of phospholipid biosynthesis II (plants)	28	12	2
plasmalogen biosynthesis I (aerobic)	16	1	1
methylaspartate cycle	19	12	1