Experiment set9IT040 for Escherichia coli BW25113

LB Anaerobic with Cephalothin sodium salt 0.0000078125 mM

Group: stress
Media: LB + Cephalothin sodium salt (7.81E-03 mM)
Culturing: Keio_ML9a, 96 deep-well microplate; Multitron, Anaerobic, at 37 (C), shaken=0 rpm
By: Hans_Hualan on 7/20/2015
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride

Specific Phenotypes

For 63 genes in this experiment

For stress Cephalothin sodium salt in Escherichia coli BW25113

For stress Cephalothin sodium salt across organisms

SEED Subsystems

Subsystem	#Specific
Bacterial Cell Division	2
Bacterial Cytoskeleton	2
D-ribose utilization	2
Peptidoglycan Biosynthesis	2
Peptidyl-prolyl cis-trans isomerase	2
Potassium homeostasis	2
ATP-dependent RNA helicases, bacterial	1
Beta-lactamase	1
CBSS-562.2.peg.5158 SK3 including	1
Conserved gene cluster associated with Met-tRNA formyltransferase	1
D-Galacturonate and D-Glucuronate Utilization	1
D-Tagatose and Galactitol Utilization	1
DNA repair, bacterial	1
DNA topoisomerases, Type I, ATP-independent	1
Fermentations: Mixed acid	1
Folate Biosynthesis	1
Glutaredoxins	1
Glutathione: Redox cycle	1
Glycerol and Glycerol-3-phosphate Uptake and Utilization	1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria	1
Glycine Biosynthesis	1
Glycine and Serine Utilization	1
Heat shock dnaK gene cluster extended	1
NiFe hydrogenase maturation	1
Nitrate and nitrite ammonification	1
Polyamine Metabolism	1
Tn552	1
Transcription factors bacterial	1
Type IV pilus	1
YeiH	1
tRNA processing	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Ascorbate and aldarate metabolism
• Pyrimidine metabolism
• Nucleotide sugars metabolism
• Peptidoglycan biosynthesis
• Glycolysis / Gluconeogenesis
• Fructose and mannose metabolism
• Galactose metabolism
• Ubiquinone and menaquinone biosynthesis
• Glycine, serine and threonine metabolism
• Penicillin and cephalosporin biosynthesis
• beta-Lactam resistance
• Tryptophan metabolism
• D-Alanine metabolism
• Starch and sucrose metabolism
• Aminosugars metabolism
• Glycosaminoglycan degradation
• Lipopolysaccharide biosynthesis
• Glycerolipid metabolism
• Glycerophospholipid metabolism
• Drug metabolism - other enzymes
• Biosynthesis of siderophore group nonribosomal peptides

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
di-trans,poly-cis-undecaprenyl phosphate biosynthesis	2	2	1
pseudouridine degradation	2	2	1
L-threonine degradation II	2	2	1
pyrimidine deoxyribonucleosides salvage	5	4	2
peptidoglycan recycling II	10	7	4
sn-glycerol 3-phosphate anaerobic respiration	3	3	1
cardiolipin biosynthesis II	3	3	1
cardiolipin biosynthesis III	3	3	1
cardiolipin biosynthesis I	3	3	1
NiFe(CO)(CN)2 cofactor biosynthesis	10	9	3
peptidoglycan recycling I	14	14	4
superpathway of pyrimidine deoxyribonucleoside salvage	9	8	2
polyisoprenoid biosynthesis (E. coli)	5	5	1
galactitol degradation	5	5	1
phosphatidylglycerol biosynthesis I	6	6	1
phosphatidylglycerol biosynthesis II	6	6	1
UDP-N-acetylmuramoyl-pentapeptide biosynthesis I (meso-diaminopimelate containing)	8	8	1
UDP-N-acetylmuramoyl-pentapeptide biosynthesis II (lysine-containing)	8	7	1
UDP-N-acetylmuramoyl-pentapeptide biosynthesis III (meso-diaminopimelate containing)	8	6	1
tunicamycin biosynthesis	9	2	1
superpathway of phospholipid biosynthesis III (E. coli)	12	12	1
peptidoglycan biosynthesis I (meso-diaminopimelate containing)	12	12	1
superpathway of cardiolipin biosynthesis (bacteria)	13	11	1
peptidoglycan biosynthesis III (mycobacteria)	15	11	1
peptidoglycan biosynthesis IV (Enterococcus faecium)	17	12	1
peptidoglycan biosynthesis II (staphylococci)	17	12	1
peptidoglycan biosynthesis V (β-lactam resistance)	17	11	1
type I lipoteichoic acid biosynthesis (S. aureus)	17	5	1
superpathway of hexitol degradation (bacteria)	18	18	1
superpathway of L-threonine metabolism	18	16	1
superpathway of phospholipid biosynthesis II (plants)	28	10	1