Experiment set18S308 for Rhodanobacter denitrificans FW104-10B01

Compare to:

NLDM_defined_noP_in_Vitamins

Group: nldm_defined_nop_in_vitamins
Media: NLDM_defined_noP_in_Vitamins
Culturing: rhodanobacter_10B01_ML12, tube, Aerobic, at 30 (C), shaken=200 rpm
By: Allison on 6-Jan-26

Specific Phenotypes

For 6 genes in this experiment

SEED Subsystems

Subsystem #Specific
Chitin and N-acetylglucosamine utilization 2
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis 1
Molybdenum cofactor biosynthesis 1
Threonine and Homoserine Biosynthesis 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
3-(4-hydroxyphenyl)pyruvate biosynthesis 1 1 1
L-aspartate degradation I 1 1 1
L-aspartate biosynthesis 1 1 1
trehalose degradation II (cytosolic) 2 2 1
malate/L-aspartate shuttle pathway 2 2 1
L-glutamate degradation II 2 1 1
trehalose degradation I (low osmolarity) 2 1 1
atromentin biosynthesis 2 1 1
L-tyrosine degradation II 2 1 1
L-tryptophan degradation IV (via indole-3-lactate) 2 1 1
L-phenylalanine biosynthesis I 3 3 1
trehalose degradation IV 3 3 1
N-acetylglucosamine degradation II 3 3 1
L-tyrosine biosynthesis I 3 3 1
L-asparagine degradation III (mammalian) 3 3 1
trehalose degradation V 3 2 1
GDP-α-D-glucose biosynthesis 3 2 1
(R)-cysteate degradation 3 1 1
indole-3-acetate biosynthesis VI (bacteria) 3 1 1
L-tyrosine degradation IV (to 4-methylphenol) 3 1 1
sulfolactate degradation III 3 1 1
L-phenylalanine degradation II (anaerobic) 3 1 1
superpathway of L-aspartate and L-asparagine biosynthesis 4 3 1
sucrose degradation III (sucrose invertase) 4 3 1
L-tyrosine degradation III 4 2 1
L-phenylalanine degradation III 4 2 1
L-tryptophan degradation VIII (to tryptophol) 4 1 1
L-tyrosine degradation I 5 4 1
glucose and glucose-1-phosphate degradation 5 3 1
trans-4-hydroxy-L-proline degradation I 5 3 1
superpathway of plastoquinol biosynthesis 5 2 1
L-tryptophan degradation XIII (reductive Stickland reaction) 5 1 1
L-phenylalanine degradation VI (reductive Stickland reaction) 5 1 1
L-tyrosine degradation V (reductive Stickland reaction) 5 1 1
4-hydroxybenzoate biosynthesis I (eukaryotes) 5 1 1
C4 photosynthetic carbon assimilation cycle, NAD-ME type 11 7 2
superpathway of L-threonine biosynthesis 6 6 1
TCA cycle VIII (Chlamydia) 6 5 1
UDP-N-acetyl-D-glucosamine biosynthesis II 6 4 1
superpathway of sulfolactate degradation 6 2 1
glycogen degradation II 6 2 1
coenzyme M biosynthesis II 6 1 1
anaerobic energy metabolism (invertebrates, cytosol) 7 7 1
UDP-N-acetyl-D-galactosamine biosynthesis II 7 5 1
C4 photosynthetic carbon assimilation cycle, PEPCK type 14 8 2
sucrose biosynthesis II 8 4 1
glycogen degradation I 8 3 1
chitin derivatives degradation 8 3 1
superpathway of aromatic amino acid biosynthesis 18 18 2
superpathway of L-methionine biosynthesis (transsulfuration) 9 7 1
chitin biosynthesis 9 6 1
1,3-propanediol biosynthesis (engineered) 9 5 1
L-phenylalanine degradation IV (mammalian, via side chain) 9 2 1
superpathway of L-phenylalanine biosynthesis 10 10 1
superpathway of L-tyrosine biosynthesis 10 10 1
rosmarinic acid biosynthesis I 10 1 1
glycolysis III (from glucose) 11 11 1
(S)-reticuline biosynthesis I 11 1 1
superpathway of L-methionine biosynthesis (by sulfhydrylation) 12 11 1
homolactic fermentation 12 11 1
indole-3-acetate biosynthesis II 12 3 1
superpathway of L-isoleucine biosynthesis I 13 13 1
superpathway of rosmarinic acid biosynthesis 14 1 1
Bifidobacterium shunt 15 14 1
superpathway of anaerobic energy metabolism (invertebrates) 17 13 1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I 18 16 1
heterolactic fermentation 18 15 1
aspartate superpathway 25 23 1
anaerobic aromatic compound degradation (Thauera aromatica) 27 1 1
superpathway of chorismate metabolism 59 40 2
Methanobacterium thermoautotrophicum biosynthetic metabolism 56 25 1