Experiment set13IT008 for Desulfovibrio vulgaris Hildenborough JW710

MoLS4 with Pantothenic acid

Group: nutrient
Media: MoLS4_no_vitamins + calcium pantothenate (210 uM), pH=7.2
Culturing: DvH_JW710, 24 deep-well microplate, Anaerobic, at 30 (C), shaken=0 rpm
By: Valentine on 6/14/2017
Media components: 30 mM Sodium sulfate, 60 mM Sodium D,L-Lactate, 20 mM Ammonium chloride, 30 mM Tris hydrochloride, 0.12 mM EDTA, 1 mM Sodium sulfide nonahydrate, 8 mM Magnesium chloride hexahydrate, 0.6 mM Calcium chloride, 2 mM Potassium phosphate dibasic, 60 uM Iron (II) chloride tetrahydrate, Desulfovibrio trace elements (15 uM Manganese (II) chloride tetrahydrate, 7.8 uM Cobalt chloride hexahydrate, 9 uM Zinc chloride, 1.26 uM Sodium molybdate, 1.92 uM Boric Acid, 2.28 uM Nickel (II) sulfate hexahydrate, 0.06 uM copper (II) chloride dihydrate, 0.21 uM Sodium selenite pentahydrate, 0.144 uM Sodium tungstate dihydrate)

Specific Phenotypes

For 9 genes in this experiment

For nutrient calcium pantothenate in Desulfovibrio vulgaris Hildenborough JW710

For nutrient calcium pantothenate across organisms

SEED Subsystems

Subsystem	#Specific
Biotin biosynthesis	3
Fatty Acid Biosynthesis FASII	1
Glycolate, glyoxylate interconversions	1
Photorespiration (oxidative C2 cycle)	1
Pyridoxin (Vitamin B6) Biosynthesis	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:

• Biotin metabolism
• Fatty acid biosynthesis
• Glyoxylate and dicarboxylate metabolism
• Vitamin B6 metabolism
• Biosynthesis of unsaturated fatty acids

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
biotin biosynthesis from 8-amino-7-oxononanoate I	4	4	3
biotin biosynthesis from 8-amino-7-oxononanoate II	4	4	3
biotin biosynthesis II	6	5	4
biotin biosynthesis from 8-amino-7-oxononanoate III	5	3	3
biotin biosynthesis I	15	13	8
gondoate biosynthesis (anaerobic)	4	4	2
glycolate and glyoxylate degradation II	2	2	1
octanoyl-[acyl-carrier protein] biosynthesis (mitochondria, yeast)	12	9	6
8-amino-7-oxononanoate biosynthesis II	2	1	1
8-amino-7-oxononanoate biosynthesis III	2	1	1
8-amino-7-oxononanoate biosynthesis I	11	9	5
palmitate biosynthesis III	29	21	13
palmitoleate biosynthesis I (from (5Z)-dodec-5-enoate)	9	8	4
tetradecanoate biosynthesis (mitochondria)	25	17	11
oleate biosynthesis IV (anaerobic)	14	13	6
palmitate biosynthesis II (type II fatty acid synthase)	31	29	13
8-amino-7-oxononanoate biosynthesis IV	5	5	2
fatty acid elongation -- saturated	5	4	2
superpathway of fatty acids biosynthesis (E. coli)	53	47	20
superpathway of unsaturated fatty acids biosynthesis (E. coli)	20	17	7
superpathway of fatty acid biosynthesis II (plant)	43	37	15
(5Z)-dodecenoate biosynthesis I	6	5	2
stearate biosynthesis II (bacteria and plants)	6	5	2
(5Z)-dodecenoate biosynthesis II	6	4	2
stearate biosynthesis IV	6	4	2
glycolate and glyoxylate degradation III	3	1	1
superpathway of fatty acid biosynthesis I (E. coli)	16	12	5
streptorubin B biosynthesis	34	20	9
fatty acid biosynthesis initiation (mitochondria)	4	2	1
glycolate and glyoxylate degradation I	4	1	1
cis-vaccenate biosynthesis	5	4	1
superpathway of fatty acid biosynthesis initiation	5	3	1
odd iso-branched-chain fatty acid biosynthesis	34	24	6
anteiso-branched-chain fatty acid biosynthesis	34	24	6
even iso-branched-chain fatty acid biosynthesis	34	24	6
petroselinate biosynthesis	6	2	1
pyridoxal 5'-phosphate biosynthesis I	7	5	1
superpathway of glycol metabolism and degradation	7	2	1
2-allylmalonyl-CoA biosynthesis	8	2	1
photorespiration I	9	6	1
photorespiration III	9	6	1
photorespiration II	10	6	1
superpathway of pyridoxal 5'-phosphate biosynthesis and salvage	12	9	1
mycolate biosynthesis	205	17	9
superpathway of mycolate biosynthesis	239	18	9