Experiment set41IT022 for Pseudomonas putida KT2440

P. putida Sci small MOI 0.1

Group: phage
Media: LB_plus_SM_buffer + Kan (50 ug/ml)
Culturing: Putida_ML5, 48 well microplate; Epoch2, Aerobic, at 30 (C), shaken=double orbital, continuous, 205cpm
By: Vivek on 1/9/23
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride, 100 mM Sodium Chloride, 4 mM Magnesium sulfate, 0.005 vol% Gelatin, 25 mM Tris hydrochloride

Specific Phenotypes

For 7 genes in this experiment

SEED Subsystems

Subsystem	#Specific
Alginate metabolism	1
DNA repair, bacterial UvrD and related helicases	1
Mannose Metabolism	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Nucleotide sugars metabolism
• Glycolysis / Gluconeogenesis
• Pentose phosphate pathway
• Fructose and mannose metabolism
• Galactose metabolism
• Purine metabolism
• Phenylalanine, tyrosine and tryptophan biosynthesis
• Starch and sucrose metabolism
• Streptomycin biosynthesis
• Lipopolysaccharide biosynthesis
• Folate biosynthesis
• Biosynthesis of phenylpropanoids
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
UDP-α-D-glucose biosynthesis	2	2	1
trehalose degradation V	3	2	1
β-1,4-D-mannosyl-N-acetyl-D-glucosamine degradation	3	2	1
GDP-α-D-glucose biosynthesis	3	2	1
GDP-mannose biosynthesis	4	4	1
starch degradation V	4	3	1
glycogen biosynthesis I (from ADP-D-Glucose)	4	3	1
starch degradation III	4	2	1
sucrose degradation IV (sucrose phosphorylase)	4	2	1
dTDP-β-L-rhamnose biosynthesis	5	5	1
glucose and glucose-1-phosphate degradation	5	4	1
sucrose degradation II (sucrose synthase)	5	3	1
D-galactose degradation I (Leloir pathway)	5	2	1
glucosylglycerol biosynthesis	5	2	1
CDP-6-deoxy-D-gulose biosynthesis	5	1	1
colanic acid building blocks biosynthesis	11	9	2
L-tryptophan biosynthesis	6	6	1
glycogen degradation II	6	5	1
superpathway of UDP-glucose-derived O-antigen building blocks biosynthesis	6	4	1
β-(1,4)-mannan degradation	7	2	1
glycogen degradation I	8	6	1
sucrose biosynthesis II	8	6	1
glycogen biosynthesis III (from α-maltose 1-phosphate)	8	3	1
sucrose biosynthesis I (from photosynthesis)	9	7	1
chitin biosynthesis	9	5	1
starch biosynthesis	10	5	1
O-antigen building blocks biosynthesis (E. coli)	11	10	1
superpathway of L-tryptophan biosynthesis	13	13	1
superpathway of GDP-mannose-derived O-antigen building blocks biosynthesis	14	7	1
superpathway of aromatic amino acid biosynthesis	18	18	1
streptomycin biosynthesis	18	1	1
superpathway of anaerobic sucrose degradation	19	13	1
superpathway of dTDP-glucose-derived O-antigen building blocks biosynthesis	19	5	1
superpathway of mycolyl-arabinogalactan-peptidoglycan complex biosynthesis	33	12	1
superpathway of chorismate metabolism	59	42	1