Experiment set5IT020 for Pseudomonas fluorescens SBW25-INTG

N-Acetyl-D-Glucosamine carbon source

Group: carbon source
Media: soilextract_PNNL_Prosser_PlotA_B_20191220 + N-Acetyl-D-Glucosamine (10 mM) + Ammonium chloride (10 mM)
Culturing: PseudoSBW25_INTG_ML3, 96 deep-well microplate; 1 mL volume, Aerobic, at 30 (C)
By: Joshua Elmore on 1/6/20

Specific Phenotypes

For 27 genes in this experiment

For carbon source N-Acetyl-D-Glucosamine in Pseudomonas fluorescens SBW25-INTG

For carbon source N-Acetyl-D-Glucosamine across organisms

SEED Subsystems

Subsystem	#Specific
Chitin and N-acetylglucosamine utilization	3
Calvin-Benson cycle	2
Folate Biosynthesis	2
Fructose utilization	2
Pentose phosphate pathway	2
UDP-N-acetylmuramate from Fructose-6-phosphate Biosynthesis	2
Beta-Glucoside Metabolism	1
Experimental tye	1
Fructose and Mannose Inducible PTS	1
Heat shock dnaK gene cluster extended	1
Heme and Siroheme Biosynthesis	1
Mannitol Utilization	1
Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate	1
Ribosome biogenesis bacterial	1
Sialic Acid Metabolism	1
Trehalose Uptake and Utilization	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Nucleotide sugars metabolism
• Aminosugars metabolism
• Starch and sucrose metabolism
• Glycolysis / Gluconeogenesis
• Pentose and glucuronate interconversions
• Galactose metabolism
• Ascorbate and aldarate metabolism
• Biosynthesis of phenylpropanoids
• Pentose phosphate pathway
• Fructose and mannose metabolism
• Biosynthesis of steroids
• Pyrimidine metabolism
• Glutamate metabolism
• Tryptophan metabolism
• Cyanoamino acid metabolism
• Lipopolysaccharide biosynthesis
• One carbon pool by folate
• Methane metabolism
• Carbon fixation in photosynthetic organisms
• Folate biosynthesis
• Porphyrin and chlorophyll metabolism
• Carotenoid biosynthesis - General
• Phenylpropanoid biosynthesis
• Biosynthesis of ansamycins
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of alkaloids derived from terpenoid and polyketide
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
N-acetylglucosamine degradation I	2	2	2
UDP-α-D-glucuronate biosynthesis (from UDP-glucose)	1	1	1
pentose phosphate pathway (partial)	3	3	2
N-acetylglucosamine degradation II	3	2	2
neolinustatin bioactivation	3	2	2
linustatin bioactivation	4	2	2
linamarin degradation	2	1	1
lotaustralin degradation	2	1	1
pseudouridine degradation	2	1	1
UDP-α-D-xylose biosynthesis	2	1	1
pentose phosphate pathway (non-oxidative branch) I	5	5	2
tetrahydrofolate biosynthesis I	3	3	1
dTMP de novo biosynthesis (mitochondrial)	3	3	1
pentose phosphate pathway (non-oxidative branch) II	6	5	2
cellulose degradation II (fungi)	3	2	1
D-apiose degradation I	3	2	1
polymyxin resistance	6	3	2
superpathway of N-acetylglucosamine, N-acetylmannosamine and N-acetylneuraminate degradation	6	2	2
oxalate degradation II	3	1	1
pentose phosphate pathway	8	8	2
heme b biosynthesis II (oxygen-independent)	4	3	1
tetrahydromonapterin biosynthesis	4	2	1
D-galactosamine and N-acetyl-D-galactosamine degradation	4	2	1
chitin derivatives degradation	8	2	2
formaldehyde assimilation II (assimilatory RuMP Cycle)	9	6	2
adipate degradation	5	5	1
UDP-N-acetyl-D-glucosamine biosynthesis I	5	5	1
Rubisco shunt	10	8	2
coumarin biosynthesis (via 2-coumarate)	5	2	1
N-acetyl-D-galactosamine degradation	5	2	1
fatty acid salvage	6	6	1
formaldehyde assimilation III (dihydroxyacetone cycle)	12	10	2
superpathway of heme b biosynthesis from uroporphyrinogen-III	6	4	1
UDP-N-acetyl-D-glucosamine biosynthesis II	6	4	1
superpathway of UDP-glucose-derived O-antigen building blocks biosynthesis	6	4	1
UDP-N-acetyl-D-galactosamine biosynthesis III	6	2	1
α-tomatine degradation	6	1	1
Calvin-Benson-Bassham cycle	13	10	2
UDP-N-acetyl-D-galactosamine biosynthesis II	7	5	1
chitin degradation I (archaea)	7	1	1
superpathway of glucose and xylose degradation	17	16	2
oxygenic photosynthesis	17	11	2
folate transformations III (E. coli)	9	9	1
chitin biosynthesis	9	5	1
3,8-divinyl-chlorophyllide a biosynthesis II (anaerobic)	9	3	1
UDP-sugars interconversion	9	2	1
teichuronic acid biosynthesis (B. subtilis 168)	9	2	1
superpathway of tetrahydrofolate biosynthesis	10	8	1
CMP-legionaminate biosynthesis I	10	2	1
colanic acid building blocks biosynthesis	11	11	1
O-antigen building blocks biosynthesis (E. coli)	11	10	1
folate transformations II (plants)	11	10	1
superpathway of N-acetylneuraminate degradation	22	14	2
oleate β-oxidation	35	33	3
superpathway of tetrahydrofolate biosynthesis and salvage	12	10	1
ethene biosynthesis V (engineered)	25	18	2
photosynthetic 3-hydroxybutanoate biosynthesis (engineered)	26	19	2
1-butanol autotrophic biosynthesis (engineered)	27	19	2
peptidoglycan recycling I	14	11	1
2-methyl-branched fatty acid β-oxidation	14	11	1
firefly bioluminescence	14	2	1
Bifidobacterium shunt	15	12	1
superpathway of UDP-N-acetylglucosamine-derived O-antigen building blocks biosynthesis	24	9	1
superpathway of bacteriochlorophyll a biosynthesis	26	5	1
superpathway of mycolyl-arabinogalactan-peptidoglycan complex biosynthesis	33	12	1
superpathway of chorismate metabolism	59	42	1