Experiment set3S349 for Phocaeicola dorei CL03T12C01

polygalacturonic acid; autoclaved 2.5 mg/ml carbon source

Group: carbon source
Media: Varel_Bryant_medium + polygalacturonic acid; autoclaved (2.5 mg/ml)
Culturing: Bdorei_CL03T12C01_ML9, 96 deep-well microplate; 1.2 mL volume, Anaerobic, at 37 (C), shaken=0 rpm
By: Surya Tripathi on 3/20/24
Media components: 15 uM Hemin, 134 uM L-Methionine, 15 uM Iron (II) sulfate heptahydrate, 8.25 mM L-Cysteine, 23.8 mM Sodium bicarbonate, Mineral 3B solution (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, 9.3 mM Ammonium chloride, 1.75 mM Sodium sulfate)

Specific Phenotypes

For 24 genes in this experiment

For carbon source polygalacturonic acid; autoclaved in Phocaeicola dorei CL03T12C01

For carbon source polygalacturonic acid; autoclaved across organisms

SEED Subsystems

Subsystem	#Specific
Cobalt-zinc-cadmium resistance	1
De Novo Purine Biosynthesis	1
Fatty Acid Biosynthesis FASII	1
KDO2-Lipid A biosynthesis	1
Restriction-Modification System	1
Universal GTPases	1
mycolic acid synthesis	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Fatty acid biosynthesis
• Purine metabolism
• Glutamate metabolism
• Biosynthesis of unsaturated fatty acids

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
gondoate biosynthesis (anaerobic)	4	4	1
octanoyl-[acyl-carrier protein] biosynthesis (mitochondria, yeast)	12	9	3
palmitate biosynthesis III	29	21	7
tetradecanoate biosynthesis (mitochondria)	25	17	6
palmitate biosynthesis II (type II fatty acid synthase)	31	29	7
palmitoleate biosynthesis I (from (5Z)-dodec-5-enoate)	9	8	2
oleate biosynthesis IV (anaerobic)	14	13	3
superpathway of fatty acids biosynthesis (E. coli)	53	47	11
5-aminoimidazole ribonucleotide biosynthesis II	5	5	1
5-aminoimidazole ribonucleotide biosynthesis I	5	5	1
fatty acid elongation -- saturated	5	5	1
superpathway of unsaturated fatty acids biosynthesis (E. coli)	20	17	4
8-amino-7-oxononanoate biosynthesis IV	5	4	1
cis-vaccenate biosynthesis	5	4	1
superpathway of fatty acid biosynthesis II (plant)	43	37	8
8-amino-7-oxononanoate biosynthesis I	11	9	2
even iso-branched-chain fatty acid biosynthesis	34	25	6
anteiso-branched-chain fatty acid biosynthesis	34	25	6
odd iso-branched-chain fatty acid biosynthesis	34	25	6
superpathway of 5-aminoimidazole ribonucleotide biosynthesis	6	6	1
(5Z)-dodecenoate biosynthesis I	6	5	1
stearate biosynthesis II (bacteria and plants)	6	5	1
stearate biosynthesis IV	6	4	1
(5Z)-dodecenoate biosynthesis II	6	4	1
petroselinate biosynthesis	6	2	1
streptorubin B biosynthesis	34	20	5
biotin biosynthesis I	15	13	2
superpathway of fatty acid biosynthesis I (E. coli)	16	14	2
2-allylmalonyl-CoA biosynthesis	8	2	1
superpathway of purine nucleotides de novo biosynthesis I	21	21	1
superpathway of purine nucleotides de novo biosynthesis II	26	23	1
mycolate biosynthesis	205	23	5
superpathway of histidine, purine, and pyrimidine biosynthesis	46	42	1
superpathway of mycolate biosynthesis	239	24	5