Experiment set5IT028 for Pseudomonas fluorescens SBW25-INTG

N-Acetyl-D-Glucosamine carbon and nitrogen source

Group: carbon and nitrogen source
Media: soilextract_PNNL_Prosser_PlotA_B_20191220 + N-Acetyl-D-Glucosamine (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 29 genes in this experiment

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

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

SEED Subsystems

Subsystem	#Specific
Chitin and N-acetylglucosamine utilization	3
Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate	2
UDP-N-acetylmuramate from Fructose-6-phosphate Biosynthesis	2
ABC transporter alkylphosphonate (TC 3.A.1.9.1)	1
Beta-Glucoside Metabolism	1
Calvin-Benson cycle	1
DNA-replication	1
Experimental tye	1
Folate Biosynthesis	1
Fructose and Mannose Inducible PTS	1
Fructose utilization	1
Glycerol and Glycerol-3-phosphate Uptake and Utilization	1
HMG CoA Synthesis	1
Heat shock dnaK gene cluster extended	1
Heme and Siroheme Biosynthesis	1
Leucine Degradation and HMG-CoA Metabolism	1
Mannitol Utilization	1
Pentose phosphate pathway	1
Phosphate metabolism	1
Proline, 4-hydroxyproline uptake and utilization	1
Serine-glyoxylate cycle	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
• Glycolysis / Gluconeogenesis
• Galactose metabolism
• Starch and sucrose metabolism
• Biosynthesis of phenylpropanoids
• Pentose phosphate pathway
• Fructose and mannose metabolism
• Ascorbate and aldarate metabolism
• Fatty acid biosynthesis
• Purine metabolism
• Pyrimidine metabolism
• Glutamate metabolism
• Valine, leucine and isoleucine degradation
• Tryptophan metabolism
• Cyanoamino acid metabolism
• Glycerophospholipid metabolism
• One carbon pool by folate
• Methane metabolism
• Carbon fixation in photosynthetic organisms
• Folate biosynthesis
• Porphyrin and chlorophyll metabolism
• 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
pentose phosphate pathway (partial)	3	3	2
N-acetylglucosamine degradation II	3	2	2
neolinustatin bioactivation	3	2	2
glycerophosphodiester degradation	2	2	1
linustatin bioactivation	4	2	2
phosphatidylcholine resynthesis via glycerophosphocholine	2	1	1
lotaustralin degradation	2	1	1
linamarin degradation	2	1	1
pentose phosphate pathway (non-oxidative branch) I	5	5	2
fatty acid salvage	6	6	2
tetrahydrofolate biosynthesis I	3	3	1
dTMP de novo biosynthesis (mitochondrial)	3	3	1
fatty acid biosynthesis initiation (type II)	3	3	1
pentose phosphate pathway (non-oxidative branch) II	6	5	2
D-apiose degradation I	3	2	1
cellulose degradation II (fungi)	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
glycerol and glycerophosphodiester degradation	4	4	1
heme b biosynthesis II (oxygen-independent)	4	3	1
phospholipid remodeling (phosphatidylethanolamine, yeast)	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
UDP-N-acetyl-D-glucosamine biosynthesis I	5	5	1
adipate degradation	5	5	1
Rubisco shunt	10	8	2
superpathway of fatty acid biosynthesis initiation	5	4	1
coumarin biosynthesis (via 2-coumarate)	5	2	1
N-acetyl-D-galactosamine degradation	5	2	1
formaldehyde assimilation III (dihydroxyacetone cycle)	12	10	2
L-leucine degradation I	6	5	1
superpathway of heme b biosynthesis from uroporphyrinogen-III	6	4	1
UDP-N-acetyl-D-glucosamine biosynthesis II	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
superpathway of tetrahydrofolate biosynthesis	10	8	1
CMP-legionaminate biosynthesis I	10	2	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
anandamide biosynthesis I	12	3	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 fatty acid biosynthesis I (E. coli)	16	14	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
streptorubin B biosynthesis	34	20	1
superpathway of fatty acid biosynthesis II (plant)	43	38	1
superpathway of fatty acids biosynthesis (E. coli)	53	49	1
superpathway of chorismate metabolism	59	42	1