Experiment set1IT096 for Pedobacter sp. GW460-11-11-14-LB5

R2A with Vancomycin Hydrochloride Hydrate 0.06 mg/ml

Group: stress
Media: R2A + Vancomycin Hydrochloride Hydrate (0.06 mg/ml)
Culturing: Pedo557_ML3, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=700 rpm
Growth: about 4.4 generations
By: Adam on 17-May-17
Media components: 0.5 g/L Bacto Peptone, 0.5 g/L casamino acids, 0.5 g/L Yeast Extract, 0.5 g/L D-Glucose, 0.5 g/L Starch, 0.3 g/L Potassium phosphate dibasic, 0.05 g/L Magnesium Sulfate Heptahydrate, 0.3 g/L Sodium pyruvate
Growth plate: 1759 A2

Specific Phenotypes

For 76 genes in this experiment

For stress Vancomycin Hydrochloride Hydrate in Pedobacter sp. GW460-11-11-14-LB5

For stress Vancomycin Hydrochloride Hydrate across organisms

SEED Subsystems

Subsystem	#Specific
Biogenesis of c-type cytochromes	2
L-fucose utilization	2
L-fucose utilization temp	2
Maltose and Maltodextrin Utilization	2
Multidrug Resistance, Tripartite Systems Found in Gram Negative Bacteria	2
Periplasmic disulfide interchange	2
Biotin biosynthesis	1
Conjugative transposon, Bacteroidales	1
Cysteine Biosynthesis	1
ECF class transporters	1
Folate Biosynthesis	1
Galactosylceramide and Sulfatide metabolism	1
Lactose and Galactose Uptake and Utilization	1
Lactose utilization	1
Methionine Biosynthesis	1
Multidrug Resistance Efflux Pumps	1
Predicted carbohydrate hydrolases	1
Pyruvate metabolism I: anaplerotic reactions, PEP	1
Serine-glyoxylate cycle	1
Thioredoxin-disulfide reductase	1
Ton and Tol transport systems	1
Two cell division clusters relating to chromosome partitioning	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Other glycan degradation
• Biosynthesis of plant hormones
• Glycolysis / Gluconeogenesis
• Citrate cycle (TCA cycle)
• Galactose metabolism
• Fatty acid biosynthesis
• Ubiquinone and menaquinone biosynthesis
• Cysteine metabolism
• Selenoamino acid metabolism
• Glutathione metabolism
• Glycosaminoglycan degradation
• Peptidoglycan biosynthesis
• alpha-Linolenic acid metabolism
• Sphingolipid metabolism
• Glycosphingolipid biosynthesis - ganglio series
• Pyruvate metabolism
• Benzoate degradation via CoA ligation
• Carbon fixation in photosynthetic organisms
• Limonene and pinene degradation
• Zeatin biosynthesis
• Sulfur metabolism
• Drug metabolism - other enzymes
• Biosynthesis of unsaturated fatty acids

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
lactose degradation III	1	1	1
xyloglucan degradation II (exoglucanase)	8	5	5
L-cysteine biosynthesis I	2	2	1
di-trans,poly-cis-undecaprenyl phosphate biosynthesis	2	2	1
β-alanine degradation III	2	1	1
polyisoprenoid biosynthesis (E. coli)	5	5	1
uracil degradation III	5	3	1
seleno-amino acid biosynthesis (plants)	5	3	1
cis-zeatin biosynthesis	5	1	1
lipoprotein posttranslational modification (Gram-negative bacteria)	7	2	1
superpathway of sulfate assimilation and cysteine biosynthesis	9	9	1
gluconeogenesis I	13	12	1
3-hydroxypropanoate cycle	13	7	1
glyoxylate assimilation	13	4	1
superpathway of glyoxylate cycle and fatty acid degradation	14	10	1
C4 photosynthetic carbon assimilation cycle, PEPCK type	14	7	1
3-hydroxypropanoate/4-hydroxybutanate cycle	18	10	1
superpathway of the 3-hydroxypropanoate cycle	18	7	1
superpathway of seleno-compound metabolism	19	6	1