Experiment set1IT040 for Caulobacter crescentus NA1000

a-Cyclodextrin carbon source

Group: carbon source
Media: M2_noCarbon + a-Cyclodextrin (20 mM)
Culturing: Caulo_ML2, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=700 rpm
Growth: about 5.8 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: 1523 A6

Specific Phenotypes

For 5 genes in this experiment

For carbon source a-Cyclodextrin in Caulobacter crescentus NA1000

For carbon source a-Cyclodextrin across organisms

SEED Subsystems

Subsystem	#Specific
Chorismate: Intermediate for synthesis of PAPA antibiotics, PABA, anthranilate, 3-hydroxyanthranilate and more.	2
Folate Biosynthesis	2
Maltose and Maltodextrin Utilization	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
• Galactose metabolism
• Valine, leucine and isoleucine degradation
• Valine, leucine and isoleucine biosynthesis
• Starch and sucrose metabolism
• Pantothenate and CoA biosynthesis
• Biosynthesis of alkaloids derived from shikimate pathway
• Biosynthesis of alkaloids derived from histidine and purine

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-alanine biosynthesis I	2	2	1
L-glutamate biosynthesis I	2	2	1
4-aminobenzoate biosynthesis II	2	1	1
ammonia assimilation cycle III	3	3	1
L-valine degradation II	3	2	1
L-isoleucine degradation II	3	2	1
L-isoleucine biosynthesis V	3	2	1
L-leucine degradation III	3	2	1
L-leucine degradation V (oxidative Stickland reaction)	3	1	1
starch degradation I	3	1	1
L-isoleucine degradation III (oxidative Stickland reaction)	3	1	1
L-valine degradation III (oxidative Stickland reaction)	3	1	1
glutaminyl-tRNAgln biosynthesis via transamidation	4	4	1
superpathway of L-alanine biosynthesis	4	4	1
L-valine biosynthesis	4	4	1
L-asparagine biosynthesis III (tRNA-dependent)	4	4	1
superpathway of tetrahydrofolate biosynthesis	10	8	2
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
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
L-isoleucine biosynthesis I (from threonine)	7	7	1
L-isoleucine biosynthesis III	7	4	1
L-glutamate and L-glutamine biosynthesis	7	4	1
L-isoleucine biosynthesis II	8	6	1
L-valine degradation I	8	5	1
L-citrulline biosynthesis	8	5	1
glycogen degradation I	8	3	1
chloramphenicol biosynthesis	9	1	1
superpathway of L-citrulline metabolism	12	7	1
superpathway of L-isoleucine biosynthesis I	13	13	1
superpathway of L-threonine metabolism	18	9	1
superpathway of chorismate metabolism	59	38	2
odd iso-branched-chain fatty acid biosynthesis	34	24	1
anteiso-branched-chain fatty acid biosynthesis	34	24	1
even iso-branched-chain fatty acid biosynthesis	34	24	1