Experiment set2S149 for Escherichia coli Nissle 1917

Sodium-DL-Lactate

Group: carbon source
Media: M9_plus_Sodium-DL-Lactate + Sodium-DL-Lactate (20 mM)
Culturing: Ecoli_Nissle_ML2, 48 well microplate, Aerobic, at 37 (C), shaken=double orbital, continuous, 205cpm
By: Lucas on 12/16/2024

Specific Phenotypes

For 7 genes in this experiment

For carbon source Sodium-DL-Lactate in Escherichia coli Nissle 1917

For carbon source Sodium-DL-Lactate across organisms

SEED Subsystems

Subsystem	#Specific
Branched-Chain Amino Acid Biosynthesis	1
Chorismate Synthesis	1
Coenzyme B12 biosynthesis	1
Cysteine Biosynthesis	1
Dissimilatory nitrite reductase	1
Experimental tye	1
Fermentations: Mixed acid	1
Heme and Siroheme Biosynthesis	1
Lactate utilization	1
Lysine Biosynthesis DAP Pathway	1
Methionine Biosynthesis	1
Phenylalanine and Tyrosine Branches from Chorismate	1
Pyruvate metabolism I: anaplerotic reactions, PEP	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:

• Glycine, serine and threonine metabolism
• Phenylalanine, tyrosine and tryptophan biosynthesis
• Porphyrin and chlorophyll metabolism
• Lysine biosynthesis
• Novobiocin biosynthesis
• Biosynthesis of plant hormones
• Purine metabolism
• Valine, leucine and isoleucine biosynthesis
• Selenoamino acid metabolism
• Pyruvate metabolism
• Carbon fixation in photosynthetic organisms
• Reductive carboxylate cycle (CO2 fixation)
• Sulfur metabolism
• Biosynthesis of phenylpropanoids
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
siroheme biosynthesis	4	4	4
L-tyrosine biosynthesis I	3	3	2
L-homoserine biosynthesis	3	3	2
L-methionine degradation II	3	2	2
L-threonine degradation I	6	6	3
CO2 fixation into oxaloacetate (anaplerotic)	2	2	1
sulfate activation for sulfonation	2	2	1
L-tyrosine biosynthesis III	4	3	2
L-threonine degradation V	2	1	1
L-isoleucine biosynthesis I (from threonine)	7	7	3
factor 430 biosynthesis	7	3	3
superpathway of L-isoleucine biosynthesis I	13	13	5
superpathway of L-threonine biosynthesis	6	6	2
L-phenylalanine biosynthesis I	3	3	1
assimilatory sulfate reduction III	3	3	1
sulfite oxidation III	3	1	1
assimilatory sulfate reduction II	3	1	1
superpathway of L-homoserine and L-methionine biosynthesis	8	8	2
assimilatory sulfate reduction I	4	4	1
superpathway of L-methionine biosynthesis (by sulfhydrylation)	12	10	3
assimilatory sulfate reduction IV	4	3	1
dipicolinate biosynthesis	4	3	1
spermidine biosynthesis II	4	2	1
L-methionine biosynthesis IV	4	2	1
L-phenylalanine biosynthesis II	4	2	1
L-tyrosine biosynthesis II	4	2	1
4-hydroxy-3-prenylbenzoate biosynthesis	4	1	1
superpathway of S-adenosyl-L-methionine biosynthesis	9	9	2
superpathway of L-methionine biosynthesis (transsulfuration)	9	9	2
hypoglycin biosynthesis	14	4	3
superpathway of L-tyrosine biosynthesis	10	10	2
superpathway of L-phenylalanine and L-tyrosine biosynthesis	5	2	1
ectoine biosynthesis	5	2	1
selenate reduction	5	2	1
cob(II)yrinate a,c-diamide biosynthesis I (early cobalt insertion)	15	3	3
dissimilatory sulfate reduction I (to hydrogen sufide))	5	1	1
superpathway of branched chain amino acid biosynthesis	17	17	3
superpathway of L-threonine metabolism	18	15	3
norspermidine biosynthesis	6	2	1
superpathway of thiosulfate metabolism (Desulfovibrio sulfodismutans)	6	1	1
superpathway of sulfur metabolism (Desulfocapsa sulfoexigens)	6	1	1
cob(II)yrinate a,c-diamide biosynthesis II (late cobalt incorporation)	13	2	2
L-lysine biosynthesis III	7	6	1
L-lysine biosynthesis VI	7	6	1
C4 photosynthetic carbon assimilation cycle, NADP-ME type	7	4	1
3-dehydroquinate biosynthesis II (archaea)	7	3	1
cremeomycin biosynthesis	7	2	1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis II	15	13	2
partial TCA cycle (obligate autotrophs)	8	7	1
nitrogen remobilization from senescing leaves	8	5	1
superpathway of polyamine biosynthesis III	8	2	1
grixazone biosynthesis	8	2	1
superpathway of aromatic amino acid biosynthesis	18	18	2
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I	18	18	2
L-lysine biosynthesis I	9	9	1
superpathway of sulfate assimilation and cysteine biosynthesis	9	9	1
L-lysine biosynthesis II	9	6	1
superpathway of L-phenylalanine biosynthesis	10	10	1
superpathway of sulfur amino acid biosynthesis (Saccharomyces cerevisiae)	10	6	1
bacilysin biosynthesis	10	1	1
C4 photosynthetic carbon assimilation cycle, NAD-ME type	11	8	1
chorismate biosynthesis II (archaea)	12	8	1
adenosylcobalamin biosynthesis I (anaerobic)	36	16	3
superpathway of sulfide oxidation (phototrophic sulfur bacteria)	12	2	1
aspartate superpathway	25	24	2
formaldehyde assimilation I (serine pathway)	13	8	1
C4 photosynthetic carbon assimilation cycle, PEPCK type	14	9	1
salinosporamide A biosynthesis	15	3	1
cyclosporin A biosynthesis	15	2	1
mixed acid fermentation	16	16	1
adenosylcobalamin biosynthesis II (aerobic)	33	17	2
gluconeogenesis II (Methanobacterium thermoautotrophicum)	18	9	1
superpathway of seleno-compound metabolism	19	6	1
superpathway of novobiocin biosynthesis	19	3	1
ethene biosynthesis V (engineered)	25	18	1
platensimycin biosynthesis	26	6	1
superpathway of chorismate metabolism	59	54	2
Methanobacterium thermoautotrophicum biosynthetic metabolism	56	22	1