Experiment set14S167 for Phocaeicola vulgatus CL09T03C04

Vitagos 5650 10 mg/mL carbon source

Group: carbon source
Media: Varel_Bryant_medium + Vitagos 5650 (10 mg/mL)
Culturing: Bvulgatus_CL09T03C04_ML5, 96 deep-well microplate; 1.2 mL volume, Anaerobic, at 37 (C), shaken=0 rpm
By: Surya on 7/3/25
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 2 genes in this experiment

For carbon source Vitagos 5650 in Phocaeicola vulgatus CL09T03C04

For carbon source Vitagos 5650 across organisms

SEED Subsystems

Subsystem	#Specific
Carboxysome	1
Cyanate hydrolysis	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Nitrogen metabolism

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
CO2 fixation into oxaloacetate (anaplerotic)	2	1	1
cyanate degradation	3	2	1
C4 photosynthetic carbon assimilation cycle, NADP-ME type	7	4	1
C4 photosynthetic carbon assimilation cycle, NAD-ME type	11	5	1
3-hydroxypropanoate cycle	13	6	1
glyoxylate assimilation	13	3	1
C4 photosynthetic carbon assimilation cycle, PEPCK type	14	7	1
gluconeogenesis II (Methanobacterium thermoautotrophicum)	18	8	1
superpathway of the 3-hydroxypropanoate cycle	18	6	1
3-hydroxypropanoate/4-hydroxybutanate cycle	18	6	1
Methanobacterium thermoautotrophicum biosynthetic metabolism	56	18	1