Experiment set1IT022 for Escherichia coli BW25113

D-Glucuronic Acid carbon source

Group: carbon source
Media: M9 minimal media_noCarbon + D-Glucuronic Acid (20 mM)
Culturing: Keio_ML9, tube, Aerobic, at 37 (C), shaken=200 rpm
Growth: about 6.5 generations
By: Kelly on 6/19/2014
Media components: 2 mM Magnesium sulfate, 0.1 mM Calcium chloride, 12.8 g/L Sodium phosphate dibasic heptahydrate, 3 g/L Potassium phosphate monobasic, 0.5 g/L Sodium Chloride, 1 g/L Ammonium chloride

Specific Phenotypes

For 15 genes in this experiment

For carbon source D-Glucuronic Acid in Escherichia coli BW25113

For carbon source D-Glucuronic Acid across organisms

SEED Subsystems

Subsystem	#Specific
ABC transporter branched-chain amino acid (TC 3.A.1.4.1)	5
D-Galacturonate and D-Glucuronate Utilization	4
Alginate metabolism	1
D-gluconate and ketogluconates metabolism	1
Entner-Doudoroff Pathway	1
Lysine Biosynthesis DAP Pathway	1
Threonine and Homoserine Biosynthesis	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Pentose and glucuronate interconversions
• Glycine, serine and threonine metabolism
• Pentose phosphate pathway
• Lysine biosynthesis
• Glycerolipid metabolism
• Glyoxylate and dicarboxylate metabolism
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
D-fructuronate degradation	4	4	2
2-O-α-mannosyl-D-glycerate degradation	2	2	1
superpathway of β-D-glucuronosides degradation	7	7	3
superpathway of hexuronide and hexuronate degradation	10	10	4
D-galacturonate degradation I	5	5	2
β-D-glucuronide and D-glucuronate degradation	3	3	1
L-homoserine biosynthesis	3	3	1
D-glucarate degradation I	4	4	1
glycolate and glyoxylate degradation I	4	4	1
D-galactarate degradation I	4	4	1
dipicolinate biosynthesis	4	3	1
L-methionine biosynthesis IV	4	2	1
spermidine biosynthesis II	4	2	1
superpathway of D-glucarate and D-galactarate degradation	5	5	1
4-deoxy-L-threo-hex-4-enopyranuronate degradation	5	4	1
pectin degradation II	5	3	1
ectoine biosynthesis	5	2	1
superpathway of L-threonine biosynthesis	6	6	1
norspermidine biosynthesis	6	2	1
superpathway of microbial D-galacturonate and D-glucuronate degradation	31	19	5
superpathway of glycol metabolism and degradation	7	7	1
L-lysine biosynthesis VI	7	6	1
L-lysine biosynthesis III	7	6	1
3,6-anhydro-α-L-galactopyranose degradation	7	4	1
3-dehydroquinate biosynthesis II (archaea)	7	3	1
cremeomycin biosynthesis	7	2	1
alginate degradation	7	1	1
superpathway of L-homoserine and L-methionine biosynthesis	8	8	1
2-deoxy-D-ribose degradation II	8	3	1
grixazone biosynthesis	8	2	1
superpathway of polyamine biosynthesis III	8	2	1
L-lysine biosynthesis I	9	9	1
superpathway of S-adenosyl-L-methionine biosynthesis	9	9	1
superpathway of L-methionine biosynthesis (transsulfuration)	9	9	1
Entner-Doudoroff pathway III (semi-phosphorylative)	9	6	1
L-lysine biosynthesis II	9	6	1
Entner-Doudoroff pathway II (non-phosphorylative)	9	6	1
photorespiration I	9	5	1
photorespiration III	9	5	1
photorespiration II	10	6	1
superpathway of L-methionine biosynthesis (by sulfhydrylation)	12	10	1
chorismate biosynthesis II (archaea)	12	8	1
superpathway of L-isoleucine biosynthesis I	13	13	1
formaldehyde assimilation I (serine pathway)	13	8	1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis II	15	13	1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I	18	18	1
aspartate superpathway	25	24	1
platensimycin biosynthesis	26	6	1