Experiment set2IT035 for Agrobacterium fabrum C58

D-Raffinose pentahydrate carbon source

Group: carbon source
Media: MOPS minimal media_noCarbon + D-Raffinose pentahydrate (10 mM)
Culturing: Agro_ML11, 24-well transparent microplate; Multitron, Aerobic, at 28 (C), shaken=200 rpm
By: Mitchell Thompson on 10/20/20
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 8 genes in this experiment

For carbon source D-Raffinose pentahydrate in Agrobacterium fabrum C58

For carbon source D-Raffinose pentahydrate across organisms

SEED Subsystems

Subsystem	#Specific
ABC transporter oligopeptide (TC 3.A.1.5.1)	2
Fructooligosaccharides(FOS) and Raffinose Utilization	2
Galactosylceramide and Sulfatide metabolism	2
Lactose and Galactose Uptake and Utilization	2
Melibiose Utilization	2
D-galactonate catabolism	1
Sex pheromones in Enterococcus faecalis and other Firmicutes	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Galactose metabolism
• Glycerolipid metabolism
• Sphingolipid metabolism
• Glycosphingolipid biosynthesis - globo series

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
melibiose degradation	1	1	1
D-galactonate degradation	3	2	1
stachyose degradation	7	4	2
L-glucose degradation	7	3	1