Experiment set2IT066 for Sinorhizobium meliloti 1021

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LB, pH8

Group: pH
Media: LB, pH=8
Culturing: Smeli_ML6, 24 deep-well microplate; Multitron, Aerobic, at 30 (C), shaken=750 rpm
Growth: about 4.3 generations
By: Mark on 6/2/2015
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride

Specific Phenotypes

For 28 genes in this experiment

SEED Subsystems

Subsystem #Specific
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis 2
Proteasome bacterial 2
Proteolysis in bacteria, ATP-dependent 2
ABC transporter dipeptide (TC 3.A.1.5.2) 1
Ammonia assimilation 1
Arginine and Ornithine Degradation 1
Glutamine synthetases 1
Lacto-N-Biose I and Galacto-N-Biose Metabolic Pathway 1
Lactose and Galactose Uptake and Utilization 1
Methionine Biosynthesis 1
N-linked Glycosylation in Bacteria 1
One-carbon metabolism by tetrahydropterines 1
Peptidoglycan Biosynthesis 1
Protein chaperones 1
Rhamnose containing glycans 1
Serine-glyoxylate cycle 1
Terminal cytochrome O ubiquinol oxidase 1
Terminal cytochrome oxidases 1
Threonine and Homoserine Biosynthesis 1
YcfH 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-N-acetyl-D-galactosamine biosynthesis I 1 1 1
3-(4-hydroxyphenyl)pyruvate biosynthesis 1 1 1
UDP-α-D-galactose biosynthesis 1 1 1
L-glutamine biosynthesis I 1 1 1
L-aspartate biosynthesis 1 1 1
L-ornithine degradation I (L-proline biosynthesis) 1 1 1
L-aspartate degradation I 1 1 1
ammonia assimilation cycle I 2 2 1
L-arginine degradation VII (arginase 3 pathway) 2 2 1
sulfoquinovosyl diacylglycerol biosynthesis 2 2 1
malate/L-aspartate shuttle pathway 2 2 1
glycogen biosynthesis II (from UDP-D-Glucose) 4 3 2
UDP-α-D-galactofuranose biosynthesis 2 1 1
L-tryptophan degradation IV (via indole-3-lactate) 2 1 1
L-proline biosynthesis II (from arginine) 2 1 1
ammonia assimilation cycle II 2 1 1
atromentin biosynthesis 2 1 1
L-tyrosine degradation II 2 1 1
L-glutamate degradation II 2 1 1
L-tyrosine biosynthesis I 3 3 1
ammonia assimilation cycle III 3 3 1
L-phenylalanine biosynthesis I 3 3 1
superpathway of ammonia assimilation (plants) 3 2 1
L-phenylalanine degradation II (anaerobic) 3 2 1
L-aspartate degradation III (anaerobic) 3 1 1
L-tyrosine degradation IV (to 4-methylphenol) 3 1 1
indole-3-acetate biosynthesis VI (bacteria) 3 1 1
L-aspartate degradation II (aerobic) 3 1 1
sulfolactate degradation III 3 1 1
D-galactose detoxification 3 1 1
L-asparagine degradation III (mammalian) 3 1 1
(R)-cysteate degradation 3 1 1
putrescine degradation II 4 2 1
L-tyrosine degradation III 4 2 1
L-phenylalanine degradation III 4 2 1
L-tryptophan degradation VIII (to tryptophol) 4 1 1
superpathway of L-aspartate and L-asparagine biosynthesis 4 1 1
L-tyrosine degradation I 5 5 1
trans-4-hydroxy-L-proline degradation I 5 3 1
D-galactose degradation I (Leloir pathway) 5 3 1
superpathway of plastoquinol biosynthesis 5 2 1
L-tryptophan degradation XIII (reductive Stickland reaction) 5 1 1
4-hydroxybenzoate biosynthesis I (eukaryotes) 5 1 1
L-phenylalanine degradation VI (reductive Stickland reaction) 5 1 1
L-tyrosine degradation V (reductive Stickland reaction) 5 1 1
C4 photosynthetic carbon assimilation cycle, NAD-ME type 11 7 2
TCA cycle VIII (Chlamydia) 6 6 1
superpathway of L-threonine biosynthesis 6 6 1
superpathway of UDP-glucose-derived O-antigen building blocks biosynthesis 6 4 1
superpathway of sulfolactate degradation 6 3 1
coenzyme M biosynthesis II 6 1 1
L-glutamate and L-glutamine biosynthesis 7 5 1
UDP-N-acetyl-D-galactosamine biosynthesis II 7 5 1
anaerobic energy metabolism (invertebrates, cytosol) 7 5 1
C4 photosynthetic carbon assimilation cycle, PEPCK type 14 8 2
stachyose degradation 7 4 1
superpathway of ornithine degradation 8 5 1
superpathway of aromatic amino acid biosynthesis 18 18 2
superpathway of L-methionine biosynthesis (transsulfuration) 9 7 1
L-phenylalanine degradation IV (mammalian, via side chain) 9 4 1
UDP-sugars interconversion 9 4 1
teichuronic acid biosynthesis (B. subtilis 168) 9 2 1
superpathway of L-tyrosine biosynthesis 10 10 1
superpathway of L-phenylalanine biosynthesis 10 10 1
L-arginine biosynthesis II (acetyl cycle) 10 10 1
reductive acetyl coenzyme A pathway I (homoacetogenic bacteria) 10 4 1
rosmarinic acid biosynthesis I 10 2 1
superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation 11 7 1
colanic acid building blocks biosynthesis 11 6 1
(S)-reticuline biosynthesis I 11 3 1
superpathway of L-methionine biosynthesis (by sulfhydrylation) 12 11 1
indole-3-acetate biosynthesis II 12 5 1
superpathway of L-isoleucine biosynthesis I 13 13 1
superpathway of L-arginine and L-ornithine degradation 13 9 1
folate transformations I 13 9 1
superpathway of rosmarinic acid biosynthesis 14 3 1
superpathway of anaerobic energy metabolism (invertebrates) 17 12 1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I 18 16 1
mycolyl-arabinogalactan-peptidoglycan complex biosynthesis 18 1 1
aspartate superpathway 25 23 1
anaerobic aromatic compound degradation (Thauera aromatica) 27 3 1
Methanobacterium thermoautotrophicum biosynthetic metabolism 56 20 2
superpathway of chorismate metabolism 59 38 2
superpathway of mycolyl-arabinogalactan-peptidoglycan complex biosynthesis 33 12 1