Experiment set7IT052 for Shewanella amazonensis SB2B

outer cut, LB soft agar motility assay

Group: motility
Media: LB + Agar (3 g/L)
Culturing: SB2B_ML5, Agar plate, Aerobic, at 30 (C), shaken=0 rpm, (Solid)
By: Mark on 1/14/2015
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride

Specific Phenotypes

For 46 genes in this experiment

For motility Agar in Shewanella amazonensis SB2B

For motility Agar across organisms

SEED Subsystems

Subsystem	#Specific
Bacterial Chemotaxis	4
Bacterial hemoglobins	3
Bacterial Cytoskeleton	2
Bacterial Cell Division	1
Chitin and N-acetylglucosamine utilization	1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria	1
Heat shock dnaK gene cluster extended	1
Plasmid replication	1
Twin-arginine translocation system	1
Two cell division clusters relating to chromosome partitioning	1
YcfH	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Purine metabolism
• Lipopolysaccharide biosynthesis
• Thiamine metabolism
• Fructose and mannose metabolism
• Ascorbate and aldarate metabolism
• Aminosugars metabolism
• Glycerophospholipid metabolism
• Ether lipid metabolism
• Sphingolipid metabolism
• Glycosphingolipid biosynthesis - lacto and neolacto series
• Glycosphingolipid biosynthesis - globo series
• Glycosphingolipid biosynthesis - ganglio series
• Riboflavin metabolism
• Nicotinate and nicotinamide metabolism
• Folate biosynthesis

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
cardiolipin biosynthesis II	3	3	1
cardiolipin biosynthesis I	3	2	1
cardiolipin biosynthesis III	3	2	1
UTP and CTP dephosphorylation I	7	5	2
phosphatidylglycerol biosynthesis I	6	6	1
phosphatidylglycerol biosynthesis II	6	6	1
pyrimidine deoxyribonucleotides de novo biosynthesis IV	7	6	1
toxoflavin biosynthesis	7	4	1
pyrimidine deoxyribonucleotides biosynthesis from CTP	8	6	1
pyrimidine deoxyribonucleotides de novo biosynthesis I	9	9	1
flavin biosynthesis I (bacteria and plants)	9	9	1
pyrimidine deoxyribonucleotides de novo biosynthesis III	9	8	1
flavin biosynthesis III (fungi)	9	8	1
flavin biosynthesis II (archaea)	10	6	1
superpathway of phospholipid biosynthesis III (E. coli)	12	10	1
superpathway of cardiolipin biosynthesis (bacteria)	13	10	1
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis (E. coli)	14	14	1
type I lipoteichoic acid biosynthesis (S. aureus)	17	5	1
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis	18	18	1
superpathway of phospholipid biosynthesis II (plants)	28	10	1