Experiment set1IT053 for Pseudomonas syringae pv. syringae B728a ΔmexB

Green bean; epiphytic

Group: in planta
Media: + epiphytic + Green bean
Culturing: SyringaeB728a_mexBdelta_ML3
By: Tyler on 12/1/17

Specific Phenotypes

For 27 genes in this experiment

For in planta epiphytic in Pseudomonas syringae pv. syringae B728a ΔmexB

For in planta epiphytic across organisms

SEED Subsystems

Subsystem	#Specific
Flagellum	18
Flagellar motility	6
Ammonia assimilation	3
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis	2
Bacterial Chemotaxis	1
DNA-binding regulatory proteins, strays	1
Entner-Doudoroff Pathway	1
Pentose phosphate pathway	1
Transcription initiation, bacterial sigma factors	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Glutamate metabolism
• Pyruvate metabolism
• Nitrogen metabolism
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Citrate cycle (TCA cycle)
• Pentose phosphate pathway
• Oxidative phosphorylation
• Photosynthesis
• Alanine and aspartate metabolism
• Arginine and proline metabolism
• Glutathione metabolism
• 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
L-glutamate biosynthesis I	2	2	2
L-glutamine degradation I	1	1	1
L-glutamate biosynthesis IV	1	1	1
L-glutamate biosynthesis III	1	1	1
L-glutamine degradation II	1	1	1
ammonia assimilation cycle III	3	3	2
L-glutamate and L-glutamine biosynthesis	7	5	4
ammonia assimilation cycle I	2	2	1
pentose phosphate pathway (oxidative branch) I	3	3	1
superpathway of ammonia assimilation (plants)	3	2	1
L-asparagine biosynthesis III (tRNA-dependent)	4	4	1
glutaminyl-tRNAgln biosynthesis via transamidation	4	3	1
cytosolic NADPH production (yeast)	5	4	1
formaldehyde oxidation I	6	3	1
L-lysine biosynthesis VI	7	6	1
incomplete reductive TCA cycle	7	4	1
pentose phosphate pathway	8	8	1
superpathway of NAD/NADP - NADH/NADPH interconversion (yeast)	8	7	1
L-citrulline biosynthesis	8	7	1
L-lysine biosynthesis I	9	9	1
Entner-Doudoroff pathway I	9	8	1
L-lysine biosynthesis II	9	6	1
reductive TCA cycle I	11	7	1
superpathway of L-citrulline metabolism	12	9	1
gluconeogenesis III	12	9	1
(S)-lactate fermentation to propanoate, acetate and hydrogen	13	5	1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis II	15	13	1
superpathway of glucose and xylose degradation	17	15	1
superpathway of glycolysis and the Entner-Doudoroff pathway	17	14	1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I	18	16	1
heterolactic fermentation	18	12	1
gluconeogenesis II (Methanobacterium thermoautotrophicum)	18	9	1
aspartate superpathway	25	22	1
Methanobacterium thermoautotrophicum biosynthetic metabolism	56	21	1