Experiment set5IT042 for Pseudomonas fluorescens FW300-N2E3

outer cut, LB soft agar motility assay

Group: motility
Media: LB + Agar (3 g/L)
Culturing: pseudo3_N2E3_ML2, Agar plate, Aerobic, at 30 (C), shaken=0 rpm, (Solid)
By: Mark on 12/17/2015
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride

Specific Phenotypes

For 74 genes in this experiment

For motility Agar in Pseudomonas fluorescens FW300-N2E3

For motility Agar across organisms

SEED Subsystems

Subsystem	#Specific
Flagellum	30
Flagellar motility	13
Bacterial Chemotaxis	6
Flagellum in Campylobacter	4
Proteolysis in bacteria, ATP-dependent	2
Two-component regulatory systems in Campylobacter	2
cAMP signaling in bacteria	2
Bacterial Cytoskeleton	1
Chitin and N-acetylglucosamine utilization	1
Cysteine Biosynthesis	1
CytR regulation	1
DNA-binding regulatory proteins, strays	1
Folate Biosynthesis	1
Glutaredoxins	1
Glutathione: Redox cycle	1
Glycine Biosynthesis	1
Glycine and Serine Utilization	1
LMPTP YwlE cluster	1
Photorespiration (oxidative C2 cycle)	1
Plasmid replication	1
Proteasome bacterial	1
Protein chaperones	1
Quorum sensing regulation in Pseudomonas	1
Serine-glyoxylate cycle	1
Serine Biosynthesis	1
Sialic Acid Metabolism	1
SigmaB stress responce regulation	1
Transcription initiation, bacterial sigma factors	1
Transport of Zinc	1
Two cell division clusters relating to chromosome partitioning	1
UDP-N-acetylmuramate from Fructose-6-phosphate Biosynthesis	1
ZZ gjo need homes	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Nucleotide sugars metabolism
• Galactose metabolism
• Ascorbate and aldarate metabolism
• Fatty acid metabolism
• Ubiquinone and menaquinone biosynthesis
• Purine metabolism
• Glycine, serine and threonine metabolism
• Valine, leucine and isoleucine degradation
• Geraniol degradation
• Cyanoamino acid metabolism
• Aminosugars metabolism
• Glycosaminoglycan degradation
• 1- and 2-Methylnaphthalene degradation
• Benzoate degradation via CoA ligation
• One carbon pool by folate
• Methane metabolism
• Brassinosteroid biosynthesis
• Caprolactam degradation
• Biosynthesis of terpenoids and steroids
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
glycine biosynthesis I	1	1	1
N-acetylglucosamine degradation I	2	2	1
dTMP de novo biosynthesis (mitochondrial)	3	3	1
glycine degradation	3	3	1
N-acetylglucosamine degradation II	3	2	1
superpathway of L-serine and glycine biosynthesis I	4	4	1
D-galactosamine and N-acetyl-D-galactosamine degradation	4	2	1
glycine betaine degradation II (mammalian)	4	1	1
citronellol degradation	4	1	1
folate polyglutamylation	5	4	1
N-acetyl-D-galactosamine degradation	5	2	1
superpathway of N-acetylglucosamine, N-acetylmannosamine and N-acetylneuraminate degradation	6	2	1
glycine betaine degradation III	7	7	1
glycine betaine degradation I	8	6	1
chitin derivatives degradation	8	2	1
folate transformations III (E. coli)	9	9	1
photorespiration III	9	5	1
photorespiration I	9	5	1
photorespiration II	10	6	1
folate transformations II (plants)	11	10	1
folate transformations I	13	9	1
formaldehyde assimilation I (serine pathway)	13	6	1
peptidoglycan recycling I	14	11	1
superpathway of N-acetylneuraminate degradation	22	15	1
purine nucleobases degradation II (anaerobic)	24	16	1