Experiment set5H9 for Shewanella amazonensis SB2B

LB with 5-Hydroxymethylfurfural 20 mM

Group: stress
Media: LB + 5-Hydroxymethylfurfural (20 mM) + Dimethyl Sulfoxide (2 vol%)
Culturing: SB2B_ML5, 48 well microplate; Tecan Infinite F200, Aerobic, at 37 (C), shaken=orbital
By: Adam on 7/30/2013
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride
Growth plate: 593 C7,C8

Specific Phenotypes

For 6 genes in this experiment

For stress 5-Hydroxymethylfurfural in Shewanella amazonensis SB2B

For stress 5-Hydroxymethylfurfural across organisms

SEED Subsystems

Subsystem	#Specific
Glutathione-regulated potassium-efflux system and associated functions	1
Peptidoglycan Biosynthesis	1
Potassium homeostasis	1
Sialic Acid Metabolism	1
UDP-N-acetylmuramate from Fructose-6-phosphate Biosynthesis	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Nucleotide sugars metabolism
• Ascorbate and aldarate metabolism
• Ubiquinone and menaquinone biosynthesis
• Aminosugars metabolism
• Glycosaminoglycan degradation
• Lipopolysaccharide biosynthesis

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
GDP-α-D-glucose biosynthesis	3	2	1
glycogen biosynthesis I (from ADP-D-Glucose)	4	4	1
sucrose degradation IV (sucrose phosphorylase)	4	3	1
starch degradation V	4	3	1
starch degradation III	4	2	1
UDP-N-acetyl-D-glucosamine biosynthesis I	5	5	1
dTDP-β-L-rhamnose biosynthesis	5	5	1
sucrose degradation II (sucrose synthase)	5	4	1
D-galactose degradation I (Leloir pathway)	5	4	1
glucosylglycerol biosynthesis	5	3	1
glucose and glucose-1-phosphate degradation	5	3	1
CDP-6-deoxy-D-gulose biosynthesis	5	1	1
O-antigen building blocks biosynthesis (E. coli)	11	10	2
glycogen degradation II	6	5	1
superpathway of UDP-glucose-derived O-antigen building blocks biosynthesis	6	4	1
glycogen degradation I	8	7	1
sucrose biosynthesis II	8	6	1
glycogen biosynthesis III (from α-maltose 1-phosphate)	8	2	1
sucrose biosynthesis I (from photosynthesis)	9	7	1
chitin biosynthesis	9	5	1
starch biosynthesis	10	6	1
CMP-legionaminate biosynthesis I	10	4	1
colanic acid building blocks biosynthesis	11	7	1
peptidoglycan recycling I	14	11	1
superpathway of mycolyl-arabinogalactan-peptidoglycan complex biosynthesis	33	12	2
streptomycin biosynthesis	18	1	1
superpathway of anaerobic sucrose degradation	19	15	1
superpathway of dTDP-glucose-derived O-antigen building blocks biosynthesis	19	6	1
superpathway of UDP-N-acetylglucosamine-derived O-antigen building blocks biosynthesis	24	10	1