Experiment set3IT008 for Caulobacter crescentus NA1000

PYE with Carbenicillin disodium salt 0.25 mg/ml

Group: stress
Media: PYE + Carbenicillin disodium salt (0.25 mg/ml)
Culturing: Caulo_ML2, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=700 rpm
Growth: about 4.4 generations
By: Adam on 1-May-17
Media components: 2 g/L Bacto Peptone, 1 g/L Yeast Extract, 0.8 mM Magnesium sulfate, 0.5 mM Calcium chloride
Growth plate: 1704 C3

Specific Phenotypes

For 11 genes in this experiment

For stress Carbenicillin disodium salt in Caulobacter crescentus NA1000

For stress Carbenicillin disodium salt across organisms

SEED Subsystems

Subsystem	#Specific
Peptidoglycan Biosynthesis	2
Methionine Biosynthesis	1
Multidrug Resistance Efflux Pumps	1
Protocatechuate branch of beta-ketoadipate pathway	1
Queuosine-Archaeosine Biosynthesis	1
Type IV pilus	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Peptidoglycan biosynthesis
• Carotenoid biosynthesis - General
• Fructose and mannose metabolism
• Purine metabolism
• Puromycin biosynthesis
• Methionine metabolism
• Lysine degradation
• Benzoate degradation via hydroxylation
• N-Glycan biosynthesis
• O-Glycan biosynthesis
• High-mannose type N-glycan biosynthesis
• O-Mannosyl glycan biosynthesis
• Nucleotide sugars metabolism
• Keratan sulfate biosynthesis
• Lipopolysaccharide biosynthesis
• Glycerolipid metabolism
• Glycosylphosphatidylinositol(GPI)-anchor biosynthesis
• alpha-Linolenic acid metabolism
• Sphingolipid metabolism
• Glycosphingolipid biosynthesis - lacto and neolacto series
• Glycosphingolipid biosynthesis - globo series
• Glycosphingolipid biosynthesis - ganglio series
• 2,4-Dichlorobenzoate degradation
• Trinitrotoluene degradation
• One carbon pool by folate
• Biotin metabolism
• Porphyrin and chlorophyll metabolism
• Zeatin biosynthesis
• Flavonoid biosynthesis
• Anthocyanin biosynthesis
• Flavone and flavonol biosynthesis
• Alkaloid biosynthesis I
• Insect hormone biosynthesis
• Biosynthesis of alkaloids derived from histidine and purine
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-methionine salvage from L-homocysteine	3	1	1
protocatechuate degradation II (ortho-cleavage pathway)	4	4	1
L-methionine biosynthesis III	4	4	1
4-sulfocatechol degradation	4	1	1
L-methionine biosynthesis I	5	3	1
superpathway of L-homoserine and L-methionine biosynthesis	8	6	1
peptidoglycan biosynthesis IV (Enterococcus faecium)	17	12	2
peptidoglycan biosynthesis II (staphylococci)	17	12	2
peptidoglycan biosynthesis V (β-lactam resistance)	17	11	2
folate transformations III (E. coli)	9	8	1
superpathway of L-methionine biosynthesis (transsulfuration)	9	7	1
superpathway of S-adenosyl-L-methionine biosynthesis	9	7	1
aromatic compounds degradation via β-ketoadipate	9	6	1
toluene degradation III (aerobic) (via p-cresol)	11	8	1
folate transformations II (plants)	11	8	1
superpathway of L-methionine biosynthesis (by sulfhydrylation)	12	12	1
peptidoglycan biosynthesis I (meso-diaminopimelate containing)	12	11	1
peptidoglycan maturation (meso-diaminopimelate containing)	12	3	1
folate transformations I	13	8	1
peptidoglycan biosynthesis III (mycobacteria)	15	11	1
superpathway of L-methionine salvage and degradation	16	7	1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I	18	16	1
aspartate superpathway	25	23	1
superpathway of aerobic toluene degradation	30	12	1
superpathway of aromatic compound degradation via 3-oxoadipate	35	12	1