Experiment set1IT013 for Caulobacter crescentus NA1000

L-Alanine carbon source

Group: carbon source
Media: M2_noCarbon + L-Alanine (20 mM)
Culturing: Caulo_ML2, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=700 rpm
Growth: about 5.0 generations
By: Jayashree on 22-Mar-17
Media components: 1.74 g/L Disodium phosphate, 1.06 g/L Potassium phosphate monobasic, 0.5 g/L Ammonium chloride, 0.5 mM Magnesium sulfate, 0.5 mM Calcium chloride, 0.01 mM Iron (II) sulfate heptahydrate, 0.008 mM EDTA
Growth plate: 1521 C2

Specific Phenotypes

For 6 genes in this experiment

For carbon source L-Alanine in Caulobacter crescentus NA1000

For carbon source L-Alanine across organisms

SEED Subsystems

Subsystem	#Specific
Chorismate: Intermediate for synthesis of PAPA antibiotics, PABA, anthranilate, 3-hydroxyanthranilate and more.	2
Folate Biosynthesis	2
Lysine Biosynthesis DAP Pathway	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:

• Folate biosynthesis
• Biosynthesis of phenylpropanoids
• Glycine, serine and threonine metabolism
• Valine, leucine and isoleucine degradation
• Valine, leucine and isoleucine biosynthesis
• Lysine biosynthesis
• Pantothenate and CoA biosynthesis
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Biosynthesis of alkaloids derived from histidine and purine
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
4-aminobenzoate biosynthesis I	2	2	2
L-glutamine degradation I	1	1	1
L-glutamate biosynthesis I	2	2	1
L-alanine biosynthesis I	2	2	1
4-aminobenzoate biosynthesis II	2	1	1
L-homoserine biosynthesis	3	3	1
ammonia assimilation cycle III	3	3	1
ferulate degradation	3	3	1
L-isoleucine biosynthesis V	3	2	1
L-isoleucine degradation II	3	2	1
L-leucine degradation III	3	2	1
L-valine degradation II	3	2	1
L-valine degradation III (oxidative Stickland reaction)	3	1	1
L-isoleucine degradation III (oxidative Stickland reaction)	3	1	1
L-leucine degradation V (oxidative Stickland reaction)	3	1	1
glutaminyl-tRNAgln biosynthesis via transamidation	4	4	1
L-asparagine biosynthesis III (tRNA-dependent)	4	4	1
superpathway of L-alanine biosynthesis	4	4	1
L-valine biosynthesis	4	4	1
dipicolinate biosynthesis	4	3	1
spermidine biosynthesis II	4	2	1
L-methionine biosynthesis IV	4	2	1
superpathway of tetrahydrofolate biosynthesis	10	8	2
ectoine biosynthesis	5	2	1
L-leucine degradation IV (reductive Stickland reaction)	5	1	1
superpathway of candicidin biosynthesis	11	4	2
superpathway of branched chain amino acid biosynthesis	17	17	3
superpathway of L-threonine biosynthesis	6	6	1
L-leucine biosynthesis	6	6	1
superpathway of tetrahydrofolate biosynthesis and salvage	12	10	2
L-leucine degradation I	6	5	1
L-isoleucine biosynthesis IV	6	4	1
L-isoleucine degradation I	6	4	1
norspermidine biosynthesis	6	2	1
superpathway of L-isoleucine biosynthesis I	13	13	2
L-isoleucine biosynthesis I (from threonine)	7	7	1
L-lysine biosynthesis III	7	6	1
L-lysine biosynthesis VI	7	6	1
L-glutamate and L-glutamine biosynthesis	7	4	1
L-isoleucine biosynthesis III	7	4	1
3-dehydroquinate biosynthesis II (archaea)	7	3	1
cremeomycin biosynthesis	7	2	1
L-isoleucine biosynthesis II	8	6	1
superpathway of L-homoserine and L-methionine biosynthesis	8	6	1
L-citrulline biosynthesis	8	5	1
L-valine degradation I	8	5	1
grixazone biosynthesis	8	2	1
superpathway of polyamine biosynthesis III	8	2	1
L-lysine biosynthesis I	9	9	1
superpathway of S-adenosyl-L-methionine biosynthesis	9	7	1
L-lysine biosynthesis II	9	7	1
superpathway of L-methionine biosynthesis (transsulfuration)	9	7	1
chloramphenicol biosynthesis	9	1	1
superpathway of L-methionine biosynthesis (by sulfhydrylation)	12	12	1
chorismate biosynthesis II (archaea)	12	8	1
superpathway of L-citrulline metabolism	12	7	1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis II	15	13	1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I	18	16	1
superpathway of L-threonine metabolism	18	9	1
suberin monomers biosynthesis	20	3	1
aspartate superpathway	25	23	1
platensimycin biosynthesis	26	6	1
superpathway of chorismate metabolism	59	38	2
even iso-branched-chain fatty acid biosynthesis	34	24	1
anteiso-branched-chain fatty acid biosynthesis	34	24	1
odd iso-branched-chain fatty acid biosynthesis	34	24	1