Experiment set7IT039 for Caulobacter crescentus NA1000

Compare to:

PYE_noCalcium 30C survival rep2 28 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 45 genes in this experiment

SEED Subsystems

Subsystem #Specific
Entner-Doudoroff Pathway 2
Allantoin Utilization 1
Biogenesis of cytochrome c oxidases 1
CO2 uptake, carboxysome 1
D-Galacturonate and D-Glucuronate Utilization 1
D-galactarate, D-glucarate and D-glycerate catabolism 1
D-gluconate and ketogluconates metabolism 1
DNA repair, UvrABC system 1
Glycerolipid and Glycerophospholipid Metabolism in Bacteria 1
Glycolysis and Gluconeogenesis 1
Glycolysis and Gluconeogenesis, including Archaeal enzymes 1
Methylglyoxal Metabolism 1
Nudix proteins (nucleoside triphosphate hydrolases) 1
Phosphate metabolism 1
Photorespiration (oxidative C2 cycle) 1
Potassium homeostasis 1
Proteasome bacterial 1
Purine Utilization 1
Pyruvate metabolism I: anaplerotic reactions, PEP 1
Rhamnose containing glycans 1
Ribosome biogenesis bacterial 1
Widespread colonization island 1
YbbK 1
dTDP-rhamnose synthesis 1
linker unit-arabinogalactan synthesis 1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway #Steps #Present #Specific
UDP-α-D-xylose biosynthesis 2 2 1
L-lactaldehyde degradation (aerobic) 2 2 1
ethanol degradation II 3 3 1
ethanol degradation IV 3 3 1
ethanol degradation III 3 2 1
methylglyoxal degradation IV 3 2 1
NAD salvage pathway III (to nicotinamide riboside) 3 2 1
hypotaurine degradation 3 2 1
methylglyoxal degradation V 3 2 1
heptadecane biosynthesis 3 1 1
alkane biosynthesis I 3 1 1
histamine degradation 3 1 1
phytol degradation 4 3 1
D-fructuronate degradation 4 3 1
fatty acid α-oxidation I (plants) 4 2 1
dTDP-N-acetylviosamine biosynthesis 4 2 1
dTDP-β-D-fucofuranose biosynthesis 4 2 1
dTDP-6-deoxy-α-D-allose biosynthesis 4 2 1
dTDP-N-acetylthomosamine biosynthesis 4 2 1
putrescine degradation III 4 2 1
L-tryptophan degradation X (mammalian, via tryptamine) 4 2 1
D-galactarate degradation I 4 1 1
glycolate and glyoxylate degradation I 4 1 1
D-glucarate degradation I 4 1 1
Entner-Doudoroff pathway III (semi-phosphorylative) 9 6 2
NAD salvage pathway II (PNC IV cycle) 5 5 1
dTDP-β-L-rhamnose biosynthesis 5 5 1
D-galacturonate degradation I 5 4 1
4-deoxy-L-threo-hex-4-enopyranuronate degradation 5 4 1
mitochondrial NADPH production (yeast) 5 3 1
dTDP-4-O-demethyl-β-L-noviose biosynthesis 5 3 1
sphingosine and sphingosine-1-phosphate metabolism 10 4 2
dTDP-α-D-mycaminose biosynthesis 5 2 1
dopamine degradation 5 2 1
octane oxidation 5 2 1
dTDP-3-acetamido-3,6-dideoxy-α-D-glucose biosynthesis 5 2 1
lactate biosynthesis (archaea) 5 2 1
dTDP-3-acetamido-α-D-fucose biosynthesis 5 2 1
superpathway of D-glucarate and D-galactarate degradation 5 1 1
dTDP-L-daunosamine biosynthesis 6 3 1
3-methyl-branched fatty acid α-oxidation 6 3 1
dTDP-sibirosamine biosynthesis 6 3 1
dTDP-D-desosamine biosynthesis 6 2 1
dTDP-α-D-ravidosamine and dTDP-4-acetyl-α-D-ravidosamine biosynthesis 6 2 1
alkane oxidation 6 1 1
noradrenaline and adrenaline degradation 13 8 2
superpathway of β-D-glucuronosides degradation 7 5 1
anaerobic energy metabolism (invertebrates, cytosol) 7 5 1
3,6-anhydro-α-L-galactopyranose degradation 7 4 1
NAD salvage pathway I (PNC VI cycle) 7 4 1
serotonin degradation 7 4 1
superpathway of glycol metabolism and degradation 7 3 1
dTDP-β-L-digitoxose biosynthesis 7 3 1
dTDP-β-L-olivose biosynthesis 7 3 1
dTDP-β-L-mycarose biosynthesis 7 2 1
ceramide degradation by α-oxidation 7 2 1
limonene degradation IV (anaerobic) 7 1 1
glyphosate degradation III 7 1 1
alginate degradation 7 1 1
superpathway of NAD/NADP - NADH/NADPH interconversion (yeast) 8 6 1
L-valine degradation I 8 5 1
superpathway of methylglyoxal degradation 8 5 1
aromatic biogenic amine degradation (bacteria) 8 3 1
dTDP-β-L-megosamine biosynthesis 8 3 1
dTDP-β-L-4-epi-vancosamine biosynthesis 8 3 1
ceramide and sphingolipid recycling and degradation (yeast) 16 4 2
L-rhamnose degradation II 8 2 1
(aminomethyl)phosphonate degradation 8 1 1
Entner-Doudoroff pathway I 9 9 1
UDP-sugars interconversion 9 4 1
Entner-Doudoroff pathway II (non-phosphorylative) 9 4 1
dTDP-α-D-forosamine biosynthesis 9 3 1
dTDP-α-D-olivose, dTDP-α-D-oliose and dTDP-α-D-mycarose biosynthesis 9 3 1
Rubisco shunt 10 8 1
glycolysis IV 10 7 1
superpathway of hexuronide and hexuronate degradation 10 7 1
glycolysis V (Pyrococcus) 10 6 1
superpathway of enterobacterial common antigen biosynthesis 10 2 1
O-antigen building blocks biosynthesis (E. coli) 11 11 1
glycolysis III (from glucose) 11 10 1
glycolysis II (from fructose 6-phosphate) 11 9 1
glycolysis VI (from fructose) 11 8 1
NAD salvage (plants) 11 4 1
mycobactin biosynthesis 11 2 1
homolactic fermentation 12 10 1
superpathway of fucose and rhamnose degradation 12 4 1
glycolysis I (from glucose 6-phosphate) 13 10 1
Bifidobacterium shunt 15 11 1
superpathway of microbial D-galacturonate and D-glucuronate degradation 31 13 2
mixed acid fermentation 16 9 1
glycerol degradation to butanol 16 9 1
superpathway of glycolysis and the Entner-Doudoroff pathway 17 14 1
superpathway of anaerobic energy metabolism (invertebrates) 17 12 1
superpathway of glucose and xylose degradation 17 12 1
heterolactic fermentation 18 12 1
superpathway of hexitol degradation (bacteria) 18 12 1
superpathway of anaerobic sucrose degradation 19 14 1
hexitol fermentation to lactate, formate, ethanol and acetate 19 11 1
superpathway of dTDP-glucose-derived O-antigen building blocks biosynthesis 19 5 1
superpathway of novobiocin biosynthesis 19 4 1
superpathway of erythromycin biosynthesis 19 2 1
superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle 22 18 1
superpathway of N-acetylneuraminate degradation 22 12 1
superpathway of megalomicin A biosynthesis 22 3 1
superpathway of dTDP-glucose-derived antibiotic building blocks biosynthesis 23 3 1
superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass 26 22 1
photosynthetic 3-hydroxybutanoate biosynthesis (engineered) 26 19 1
1-butanol autotrophic biosynthesis (engineered) 27 18 1
superpathway of mycolyl-arabinogalactan-peptidoglycan complex biosynthesis 33 13 1