Experiment set3S384 for Phocaeicola dorei CL03T12C01

L-Asparagine nitrogen source; Varel_Bryant_medium_Glucose_lowCys_noNitrogen

Group: nitrogen source
Media: Varel_Bryant_medium_Glucose_lowCys_noNitrogen + L-Asparagine (10 mM)
Culturing: Bdorei_CL03T12C01_ML9, 96 deep-well microplate; 1.2 mL volume, Anaerobic, at 37 (C), shaken=0 rpm
By: Surya Tripathi on 20-Mar-24
Media components: 15 uM Hemin, 134 uM L-Methionine, 15 uM Iron (II) sulfate heptahydrate, 3 mM L-Cysteine, 23.8 mM Sodium bicarbonate, 20 mM D-Glucose, Mineral 3B solution minus Nitrogen (6.6 mM Potassium phosphate monobasic, 15.4 mM Sodium Chloride, 98 uM Magnesium chloride hexahydrate, 176.5 uM Calcium chloride dihydrate, 4.2 uM Cobalt chloride hexahydrate, 50.5 uM Manganese (II) chloride tetrahydrate, 1.75 mM Sodium sulfate)

Specific Phenotypes

For 20 genes in this experiment

For nitrogen source L-Asparagine in Phocaeicola dorei CL03T12C01

For nitrogen source L-Asparagine across organisms

SEED Subsystems

Subsystem	#Specific
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis	2
Peptidyl-prolyl cis-trans isomerase	2
Bacterial Cell Division	1
F0F1-type ATP synthase	1
Glycine and Serine Utilization	1
Potassium homeostasis	1
Serine Biosynthesis	1
Sialic Acid Metabolism	1
UDP-N-acetylmuramate from Fructose-6-phosphate Biosynthesis	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Alanine and aspartate metabolism
• Nitrogen metabolism
• Oxidative phosphorylation
• Photosynthesis
• Glutamate metabolism
• Glycine, serine and threonine metabolism
• Lysine degradation
• Cyanoamino acid metabolism
• Nucleotide sugars metabolism
• Aminosugars metabolism
• Peptidoglycan biosynthesis
• Biotin metabolism

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-asparagine degradation I	1	1	1
superpathway of L-aspartate and L-asparagine biosynthesis	4	4	2
L-glutamate degradation II	2	2	1
L-serine biosynthesis I	3	3	1
L-asparagine degradation III (mammalian)	3	2	1
L-aspartate degradation III (anaerobic)	3	2	1
L-aspartate degradation II (aerobic)	3	2	1
superpathway of L-serine and glycine biosynthesis I	4	4	1
UDP-N-acetyl-D-glucosamine biosynthesis I	5	3	1
N-(1-deoxy-D-fructos-1-yl)-L-asparagine degradation	5	2	1
UDP-N-acetyl-D-glucosamine biosynthesis II	6	3	1
UDP-N-acetyl-D-galactosamine biosynthesis III	6	2	1
L-canavanine degradation II	6	1	1
superpathway of sulfate assimilation and cysteine biosynthesis	9	7	1
chitin biosynthesis	9	5	1
CMP-legionaminate biosynthesis I	10	2	1
O-antigen building blocks biosynthesis (E. coli)	11	9	1
superpathway of UDP-N-acetylglucosamine-derived O-antigen building blocks biosynthesis	24	4	1
superpathway of mycolyl-arabinogalactan-peptidoglycan complex biosynthesis	33	11	1