Experiment set7IT012 for Pantoea sp. MT58

Survival; Treatment=FW300 (pH7.4) with 5.0 mM Glucose; TreatmentDuration=0.5hrs; Outgrowth=LBkan50

Group: survival
Media: + Treatment=FW300 (pH7.4) with 5.0 mM Glucose; TreatmentDuration=0.5hrs; Outgrowth=LBkan50
Culturing: MT058_ML2, tube, Aerobic, at 30 (C)
By: Mike Thorgersen on 07/11/2022

Specific Phenotypes

For 27 genes in this experiment

For survival Treatment=FW300 (pH7.4) with 5.0 mM Glucose; TreatmentDuration=0.5hrs; Outgrowth=LBkan50 in Pantoea sp. MT58

For survival Treatment=FW300 (pH7.4) with 5.0 mM Glucose; TreatmentDuration=0.5hrs; Outgrowth=LBkan50 across organisms

SEED Subsystems

Subsystem	#Specific
Fermentations: Mixed acid	1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis	1
Glutathionylspermidine and Trypanothione	1
Homogentisate pathway of aromatic compound degradation	1
Periplasmic disulfide interchange	1
Queuosine-Archaeosine Biosynthesis	1
Restriction-Modification System	1
Soluble cytochromes and functionally related electron carriers	1
Threonine and Homoserine Biosynthesis	1
Transport of Manganese	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Arginine and proline metabolism
• Glutamate metabolism
• Alanine and aspartate metabolism
• Glycine, serine and threonine metabolism
• Methionine metabolism
• Cysteine metabolism
• Lysine biosynthesis
• Lysine degradation
• Tyrosine metabolism
• Phenylalanine metabolism
• Phenylalanine, tyrosine and tryptophan biosynthesis
• Novobiocin biosynthesis
• Aminophosphonate metabolism
• Glutathione metabolism
• Nucleotide sugars metabolism
• Carbon fixation in photosynthetic organisms
• Caprolactam degradation
• Alkaloid biosynthesis I
• Alkaloid biosynthesis II
• Biosynthesis of phenylpropanoids
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Biosynthesis of plant hormones

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-aspartate degradation I	1	1	1
3-(4-hydroxyphenyl)pyruvate biosynthesis	1	1	1
glutathionylspermidine biosynthesis	1	1	1
L-aspartate biosynthesis	1	1	1
L-cysteine degradation III	2	2	1
L-glutamate degradation II	2	2	1
malate/L-aspartate shuttle pathway	2	2	1
L-tyrosine degradation II	2	1	1
atromentin biosynthesis	2	1	1
L-tryptophan degradation IV (via indole-3-lactate)	2	1	1
L-tyrosine biosynthesis I	3	3	1
L-phenylalanine biosynthesis I	3	3	1
L-phenylalanine degradation II (anaerobic)	3	2	1
L-asparagine degradation III (mammalian)	3	2	1
indole-3-acetate biosynthesis VI (bacteria)	3	2	1
L-tyrosine degradation IV (to 4-methylphenol)	3	1	1
sulfolactate degradation III	3	1	1
(R)-cysteate degradation	3	1	1
superpathway of L-aspartate and L-asparagine biosynthesis	4	4	1
L-phenylalanine degradation III	4	2	1
L-tryptophan degradation VIII (to tryptophol)	4	2	1
L-tyrosine degradation III	4	2	1
ectoine degradation	4	1	1
ectoine biosynthesis	5	3	1
trans-4-hydroxy-L-proline degradation I	5	3	1
superpathway of plastoquinol biosynthesis	5	2	1
L-tyrosine degradation I	5	2	1
L-tryptophan degradation XIII (reductive Stickland reaction)	5	1	1
L-phenylalanine degradation VI (reductive Stickland reaction)	5	1	1
4-hydroxybenzoate biosynthesis I (eukaryotes)	5	1	1
L-tyrosine degradation V (reductive Stickland reaction)	5	1	1
C4 photosynthetic carbon assimilation cycle, NAD-ME type	11	8	2
superpathway of L-threonine biosynthesis	6	6	1
TCA cycle VIII (Chlamydia)	6	5	1
norspermidine biosynthesis	6	4	1
superpathway of sulfolactate degradation	6	2	1
coenzyme M biosynthesis II	6	1	1
anaerobic energy metabolism (invertebrates, cytosol)	7	5	1
C4 photosynthetic carbon assimilation cycle, PEPCK type	14	7	2
rhizobactin 1021 biosynthesis	7	2	1
superpathway of polyamine biosynthesis III	8	4	1
superpathway of aromatic amino acid biosynthesis	18	18	2
superpathway of L-methionine biosynthesis (transsulfuration)	9	9	1
L-phenylalanine degradation IV (mammalian, via side chain)	9	4	1
superpathway of L-tyrosine biosynthesis	10	10	1
superpathway of L-phenylalanine biosynthesis	10	10	1
rosmarinic acid biosynthesis I	10	1	1
pyoverdine I biosynthesis	11	2	1
baumannoferrin biosynthesis	11	2	1
(S)-reticuline biosynthesis I	11	1	1
superpathway of L-methionine biosynthesis (by sulfhydrylation)	12	10	1
indole-3-acetate biosynthesis II	12	4	1
superpathway of L-isoleucine biosynthesis I	13	13	1
superpathway of rosmarinic acid biosynthesis	14	1	1
superpathway of anaerobic energy metabolism (invertebrates)	17	10	1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I	18	18	1
aspartate superpathway	25	24	1
anaerobic aromatic compound degradation (Thauera aromatica)	27	3	1
superpathway of chorismate metabolism	59	44	2
Methanobacterium thermoautotrophicum biosynthetic metabolism	56	21	1