Experiment set10IT007 for Agrobacterium fabrum C58

D-glutamine carbon source

Group: carbon source
Media: MOPS minimal media_noCarbon + D-glutamine (10 mM), pH=7
Culturing: Agro_ML11, 24-well plate, Aerobic, at 28 (C), shaken=200 rpm
By: Mitchell Thompson on 1/6/22
Media components: 40 mM 3-(N-morpholino)propanesulfonic acid, 4 mM Tricine, 1.32 mM Potassium phosphate dibasic, 0.01 mM Iron (II) sulfate heptahydrate, 9.5 mM Ammonium chloride, 0.276 mM Aluminum potassium sulfate dodecahydrate, 0.0005 mM Calcium chloride, 0.525 mM Magnesium chloride hexahydrate, 50 mM Sodium Chloride, 3e-09 M Ammonium heptamolybdate tetrahydrate, 4e-07 M Boric Acid, 3e-08 M Cobalt chloride hexahydrate, 1e-08 M Copper (II) sulfate pentahydrate, 8e-08 M Manganese (II) chloride tetrahydrate, 1e-08 M Zinc sulfate heptahydrate

Specific Phenotypes

For 6 genes in this experiment

For carbon source D-glutamine in Agrobacterium fabrum C58

For carbon source D-glutamine across organisms

SEED Subsystems

Subsystem	#Specific
Glutamate dehydrogenases	1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis	1
Pyruvate Alanine Serine Interconversions	1
Respiratory dehydrogenases 1	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Glutamate metabolism
• Arginine and proline metabolism
• Nitrogen metabolism
• Aminoacyl-tRNA biosynthesis
• Fatty acid biosynthesis
• Urea cycle and metabolism of amino groups
• Alanine and aspartate metabolism
• Phenylalanine metabolism

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-glutamine degradation I	1	1	1
L-glutamate degradation I	1	1	1
L-asparagine biosynthesis III (tRNA-dependent)	4	4	3
glutaminyl-tRNAgln biosynthesis via transamidation	4	4	3
L-alanine degradation I	2	2	1
L-glutamate biosynthesis I	2	2	1
urea degradation I	3	3	1
ammonia assimilation cycle III	3	3	1
L-alanine degradation II (to D-lactate)	3	3	1
ethene biosynthesis IV (engineered)	3	1	1
biotin-carboxyl carrier protein assembly	4	4	1
superpathway of allantoin degradation in yeast	6	3	1
L-glutamate and L-glutamine biosynthesis	7	4	1
4-aminobutanoate degradation V	7	2	1
L-glutamate degradation XI (reductive Stickland reaction)	7	1	1
L-citrulline biosynthesis	8	7	1
L-glutamate degradation V (via hydroxyglutarate)	10	4	1
superpathway of L-citrulline metabolism	12	9	1
3-hydroxypropanoate cycle	13	8	1
glyoxylate assimilation	13	5	1
3-hydroxypropanoate/4-hydroxybutanate cycle	18	11	1
superpathway of the 3-hydroxypropanoate cycle	18	8	1
methylaspartate cycle	19	12	1