Experiment set16IT036 for Bifidobacterium breve UCC2003

Compare to:

chicken 21; day 7; diet=StandardDiet; sample=Small_intestine

Group: chicken
Media: + diet=StandardDiet; sample=Small_intestine
Culturing: Bifido_ML2
By: Anthony Shiver on 4/4/2021

Specific Phenotypes

For 46 genes in this experiment

For chicken diet=StandardDiet; sample=Small_intestine in Bifidobacterium breve UCC2003

For chicken diet=StandardDiet; sample=Small_intestine across organisms

SEED Subsystems

Subsystem #Specific
Ribonucleotide reduction 4
Ammonia assimilation 2
DNA-replication 2
DNA repair, UvrABC system 2
Fructooligosaccharides(FOS) and Raffinose Utilization 2
Mannose Metabolism 2
Methionine Biosynthesis 2
Methionine Degradation 2
Choline Transport 1
Choline and Betaine Uptake and Betaine Biosynthesis 1
Chorismate Synthesis 1
DNA repair, bacterial 1
De Novo Pyrimidine Synthesis 1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis 1
Glutaredoxins 1
Glutathione: Redox cycle 1
L-rhamnose utilization 1
Phenylalanine and Tyrosine Branches from Chorismate 1
Polysaccharide deacetylases 1
Predicted carbohydrate hydrolases 1
Sialic Acid Metabolism 1
ZZ gjo need homes 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
L-serine degradation 3 3 3
L-cysteine degradation II 3 3 2
D-serine degradation 3 2 2
L-tryptophan degradation II (via pyruvate) 3 2 2
pyrimidine nucleobases salvage II 2 2 1
L-glutamate degradation II 2 2 1
pyrimidine ribonucleosides salvage III 2 2 1
L-phenylalanine biosynthesis III (cytosolic, plants) 2 2 1
adenosine deoxyribonucleotides de novo biosynthesis II 4 2 2
guanosine deoxyribonucleotides de novo biosynthesis II 4 2 2
adenosine deoxyribonucleotides de novo biosynthesis I 2 1 1
guanosine deoxyribonucleotides de novo biosynthesis I 2 1 1
glycine betaine degradation III 7 3 3
felinine and 3-methyl-3-sulfanylbutan-1-ol biosynthesis 5 2 2
glycine betaine degradation I 8 3 3
L-phenylalanine biosynthesis I 3 3 1
L-methionine biosynthesis II 6 5 2
L-aspartate degradation III (anaerobic) 3 2 1
L-aspartate degradation II (aerobic) 3 2 1
glycine degradation 3 1 1
N-acetylneuraminate and N-acetylmannosamine degradation II 3 1 1
choline-O-sulfate degradation 3 1 1
superpathway of adenosine nucleotides de novo biosynthesis II 7 5 2
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis (E. coli) 14 9 4
superpathway of guanosine nucleotides de novo biosynthesis II 8 5 2
L-mimosine degradation 8 4 2
superpathway of L-aspartate and L-asparagine biosynthesis 4 2 1
glutathione-mediated detoxification I 8 2 2
pyrimidine deoxyribonucleotides de novo biosynthesis I 9 6 2
pyrimidine deoxyribonucleotides de novo biosynthesis III 9 5 2
superpathway of L-lysine, L-threonine and L-methionine biosynthesis II 15 13 3
superpathway of adenosine nucleotides de novo biosynthesis I 5 4 1
UMP biosynthesis II 6 6 1
superpathway of guanosine nucleotides de novo biosynthesis I 6 4 1
L-canavanine degradation II 6 1 1
superpathway of purine nucleotides de novo biosynthesis II 26 21 4
L-lysine biosynthesis VI 7 6 1
L-lysine biosynthesis III 7 6 1
pyrimidine deoxyribonucleotides de novo biosynthesis IV 7 4 1
pyrimidine deoxyribonucleotides biosynthesis from CTP 8 4 1
purine nucleobases degradation II (anaerobic) 24 8 3
L-lysine biosynthesis I 9 9 1
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis 18 13 2
L-lysine biosynthesis II 9 6 1
superpathway of L-phenylalanine biosynthesis 10 10 1
superpathway of purine nucleotides de novo biosynthesis I 21 18 2
superpathway of histidine, purine, and pyrimidine biosynthesis 46 39 4
superpathway of purine nucleotide salvage 14 9 1
superpathway of aromatic amino acid biosynthesis 18 18 1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I 18 16 1
aspartate superpathway 25 23 1
superpathway of chorismate metabolism 59 32 1