Experiment set19S43 for Bifidobacterium breve UCC2003

cage3; mouse1; day5; diet=PolysaccharideDeficient; sample=FecalPellet; coculture=Btheta_VPI5482; stagger=24hrs

Group: mouse preculture
Media: + diet=PolysaccharideDeficient; sample=FecalPellet; coculture=Btheta_VPI5482; stagger=24hrs
Culturing: Bifido_ML2
By: Anthony Shiver on 4/3/2024

Specific Phenotypes

For 8 genes in this experiment

For mouse preculture diet=PolysaccharideDeficient; sample=FecalPellet; coculture=Btheta_VPI5482; stagger=24hrs in Bifidobacterium breve UCC2003

For mouse preculture diet=PolysaccharideDeficient; sample=FecalPellet; coculture=Btheta_VPI5482; stagger=24hrs across organisms

SEED Subsystems

Subsystem	#Specific
Biotin biosynthesis	1
DNA-replication	1
Thiamin biosynthesis	1
n-Phenylalkanoic acid degradation	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Thiamine metabolism
• Fatty acid metabolism
• Purine metabolism
• Lipopolysaccharide biosynthesis
• Folate biosynthesis

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
hydroxymethylpyrimidine salvage	2	2	2
long-chain fatty acid activation	1	1	1
thiamine diphosphate salvage II	5	4	3
4-amino-2-methyl-5-diphosphomethylpyrimidine biosynthesis I	2	2	1
γ-linolenate biosynthesis II (animals)	2	1	1
linoleate biosynthesis II (animals)	2	1	1
thiamine diphosphate salvage IV (yeast)	7	6	3
thiamine diphosphate formation from pyrithiamine and oxythiamine (yeast)	8	5	3
thiamine diphosphate salvage V	3	2	1
3-methyl-branched fatty acid α-oxidation	6	3	2
oleate biosynthesis I (plants)	3	1	1
alkane biosynthesis II	3	1	1
phytol degradation	4	3	1
phosphatidylcholine acyl editing	4	1	1
long chain fatty acid ester synthesis (engineered)	4	1	1
wax esters biosynthesis II	4	1	1
sporopollenin precursors biosynthesis	18	4	4
sphingosine and sphingosine-1-phosphate metabolism	10	4	2
octane oxidation	5	2	1
stearate biosynthesis II (bacteria and plants)	6	4	1
stearate biosynthesis IV	6	3	1
6-gingerol analog biosynthesis (engineered)	6	1	1
fatty acid salvage	6	1	1
stearate biosynthesis I (animals)	6	1	1
superpathway of thiamine diphosphate biosynthesis III (eukaryotes)	7	4	1
ceramide degradation by α-oxidation	7	2	1
arachidonate biosynthesis III (6-desaturase, mammals)	7	1	1
capsaicin biosynthesis	7	1	1
icosapentaenoate biosynthesis III (8-desaturase, mammals)	7	1	1
icosapentaenoate biosynthesis II (6-desaturase, mammals)	7	1	1
4-amino-2-methyl-5-diphosphomethylpyrimidine biosynthesis II	8	3	1
ceramide and sphingolipid recycling and degradation (yeast)	16	4	2
2-deoxy-D-ribose degradation II	8	2	1
superpathway of thiamine diphosphate biosynthesis I	10	6	1
suberin monomers biosynthesis	20	2	2
superpathway of fatty acid biosynthesis II (plant)	43	29	4
superpathway of thiamine diphosphate biosynthesis II	11	7	1
palmitate biosynthesis II (type II fatty acid synthase)	31	22	2
cutin biosynthesis	16	1	1
superpathway of fatty acids biosynthesis (E. coli)	53	35	2
palmitate biosynthesis III	29	14	1
oleate β-oxidation	35	1	1