Experiment set6IT047 for Caulobacter crescentus NA1000

PYE_noCalcium 30C survival rep2 12 days

Group: survival
Media: PYE_noCalcium
Culturing: Caulo_ML2, tube, Aerobic, at 30 (C), shaken=200 rpm
By: Sneha on 8-Aug-18
Media components: 2 g/L Bacto Peptone, 1 g/L Yeast Extract, 0.8 mM Magnesium sulfate

Specific Phenotypes

For 15 genes in this experiment

SEED Subsystems

Subsystem	#Specific
Potassium homeostasis	2
Entner-Doudoroff Pathway	1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria	1
Methylglyoxal Metabolism	1
Nudix proteins (nucleoside triphosphate hydrolases)	1
Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Fatty acid metabolism
• Glycolysis / Gluconeogenesis
• Ascorbate and aldarate metabolism
• Urea cycle and metabolism of amino groups
• Valine, leucine and isoleucine degradation
• Geraniol degradation
• Lysine degradation
• Arginine and proline metabolism
• Histidine metabolism
• Tryptophan metabolism
• beta-Alanine metabolism
• Glycerolipid metabolism
• Glycerophospholipid metabolism
• Pyruvate metabolism
• 1- and 2-Methylnaphthalene degradation
• 1,2-Dichloroethane degradation
• Propanoate metabolism
• 3-Chloroacrylic acid degradation
• Butanoate metabolism
• Nicotinate and nicotinamide metabolism
• Limonene and pinene degradation

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
acetate formation from acetyl-CoA (succinate)	1	1	1
putrescine degradation V	2	2	1
ethylene glycol degradation	2	1	1
putrescine degradation I	2	1	1
pyruvate fermentation to acetate V	3	3	1
ethanol degradation IV	3	3	1
ethanol degradation II	3	3	1
pyruvate fermentation to acetate VI	3	2	1
NAD salvage pathway III (to nicotinamide riboside)	3	2	1
hypotaurine degradation	3	2	1
ethanol degradation III	3	2	1
putrescine degradation IV	3	2	1
histamine degradation	3	1	1
heptadecane biosynthesis	3	1	1
alkane biosynthesis I	3	1	1
phytol degradation	4	3	1
fatty acid α-oxidation I (plants)	4	2	1
putrescine degradation III	4	2	1
L-tryptophan degradation X (mammalian, via tryptamine)	4	2	1
D-arabinose degradation II	4	1	1
NAD salvage pathway II (PNC IV cycle)	5	5	1
mitochondrial NADPH production (yeast)	5	3	1
sphingosine and sphingosine-1-phosphate metabolism	10	4	2
dopamine degradation	5	2	1
octane oxidation	5	2	1
3-methyl-branched fatty acid α-oxidation	6	3	1
alkane oxidation	6	1	1
noradrenaline and adrenaline degradation	13	8	2
NAD salvage pathway I (PNC VI cycle)	7	4	1
serotonin degradation	7	4	1
superpathway of glycol metabolism and degradation	7	3	1
ceramide degradation by α-oxidation	7	2	1
limonene degradation IV (anaerobic)	7	1	1
succinate fermentation to butanoate	7	1	1
superpathway of NAD/NADP - NADH/NADPH interconversion (yeast)	8	6	1
superpathway of ornithine degradation	8	5	1
aromatic biogenic amine degradation (bacteria)	8	3	1
ceramide and sphingolipid recycling and degradation (yeast)	16	4	2
TCA cycle VII (acetate-producers)	9	7	1
Entner-Doudoroff pathway II (non-phosphorylative)	9	4	1
anaerobic energy metabolism (invertebrates, mitochondrial)	10	7	1
superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation	11	5	1
NAD salvage (plants)	11	4	1
mycobactin biosynthesis	11	2	1
superpathway of L-arginine and L-ornithine degradation	13	7	1
superpathway of anaerobic energy metabolism (invertebrates)	17	12	1
superpathway of pentose and pentitol degradation	42	12	1