Experiment set3H47 for Shewanella amazonensis SB2B

LB with Cobalt chloride hexahydrate 0.078125 mM

Group: stress
Media: LB + Cobalt chloride hexahydrate (0.078125 mM)
Culturing: SB2B_ML5, 48 well microplate; Tecan Infinite F200, Aerobic, at 37 (C), shaken=orbital
By: Adam on 7/26/2013
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride
Growth plate: 588 A7,A8

Specific Phenotypes

For 22 genes in this experiment

For stress Cobalt chloride hexahydrate in Shewanella amazonensis SB2B

For stress Cobalt chloride hexahydrate across organisms

SEED Subsystems

Subsystem	#Specific
Iron acquisition in Vibrio	3
Transport of Iron	3
Campylobacter Iron Metabolism	2
Biogenesis of cytochrome c oxidases	1
Cysteine Biosynthesis	1
Glutathione: Redox cycle	1
Lactose and Galactose Uptake and Utilization	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:

• Tryptophan metabolism
• Nucleotide sugars metabolism
• Pentose phosphate pathway
• Galactose metabolism
• Ubiquinone and menaquinone biosynthesis
• Photosynthesis
• Cysteine metabolism
• Histidine metabolism
• Tyrosine metabolism
• Benzoxazinone biosynthesis
• Selenoamino acid metabolism
• Glutathione metabolism
• Other glycan degradation
• Aminosugars metabolism
• Glycosaminoglycan degradation
• Lipopolysaccharide biosynthesis
• Glycosphingolipid biosynthesis - globo series
• Glycosphingolipid biosynthesis - ganglio series
• Naphthalene and anthracene degradation
• Nicotinate and nicotinamide metabolism
• Porphyrin and chlorophyll metabolism
• Carotenoid biosynthesis - General
• Sulfur metabolism
• Phenylpropanoid biosynthesis
• Flavonoid biosynthesis
• Anthocyanin biosynthesis
• Alkaloid biosynthesis I
• Insect hormone biosynthesis
• Biosynthesis of siderophore group nonribosomal peptides
• Biosynthesis of alkaloids derived from shikimate pathway

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-cysteine biosynthesis I	2	2	1
D-galactose detoxification	3	2	1
glutathione-peroxide redox reactions	3	2	1
chitin degradation II (Vibrio)	6	2	2
peptidoglycan recycling II	10	5	3
photosynthesis light reactions	4	1	1
NADPH to cytochrome c oxidase via plastocyanin (thylakoid membrane)	4	1	1
peptidoglycan recycling I	14	11	3
D-galactose degradation I (Leloir pathway)	5	4	1
seleno-amino acid biosynthesis (plants)	5	3	1
superpathway of photosynthetic hydrogen production	6	1	1
stachyose degradation	7	3	1
chitin degradation III (Serratia)	7	2	1
superpathway of sulfate assimilation and cysteine biosynthesis	9	9	1
oxygenic photosynthesis	17	12	1
superpathway of seleno-compound metabolism	19	8	1
ethene biosynthesis V (engineered)	25	19	1
photosynthetic 3-hydroxybutanoate biosynthesis (engineered)	26	21	1
1-butanol autotrophic biosynthesis (engineered)	27	20	1