Experiment set1IT038 for Echinicola vietnamensis KMM 6221, DSM 17526

marine broth with Sodium nitrite 30 mM

Group: stress
Media: marine_broth_2216 + Sodium nitrite (30 mM)
Culturing: Cola_ML5, 24-well transparent microplate; Multitron, Aerobic, at 30 (C), shaken=700 rpm
Growth: about 3.8 generations
By: Adam on 29-Mar-17
Media components: 5 g/L Bacto Peptone, 1 g/L Yeast Extract, 0.1 g/L Ferric citrate, 19.45 g/L Sodium Chloride, 5.9 g/L Magnesium chloride hexahydrate, 3.24 g/L Magnesium sulfate, 1.8 g/L Calcium chloride, 0.55 g/L Potassium Chloride, 0.16 g/L Sodium bicarbonate, 0.08 g/L Potassium bromide, 34 mg/L Strontium chloride, 22 mg/L Boric Acid, 4 mg/L Sodium metasilicate, 2.4 mg/L sodium fluoride, 8 mg/L Disodium phosphate
Growth plate: 1729 A3

Specific Phenotypes

For 21 genes in this experiment

For stress Sodium nitrite in Echinicola vietnamensis KMM 6221, DSM 17526

For stress Sodium nitrite across organisms

SEED Subsystems

Subsystem	#Specific
Adenosyl nucleosidases	1
Deoxyribose and Deoxynucleoside Catabolism	1
Entner-Doudoroff Pathway	1
Glycolysis and Gluconeogenesis	1
Heat shock dnaK gene cluster extended	1
Lysine Biosynthesis DAP Pathway	1
NAD and NADP cofactor biosynthesis global	1
Purine conversions	1
Sialic Acid Metabolism	1
Threonine and Homoserine Biosynthesis	1
Ton and Tol transport systems	1
YeiH	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Purine metabolism
• Ubiquinone and menaquinone biosynthesis
• Pyrimidine metabolism
• Nucleotide sugars metabolism
• Biosynthesis of plant hormones
• Glycolysis / Gluconeogenesis
• Ascorbate and aldarate metabolism
• Fatty acid biosynthesis
• Glycine, serine and threonine metabolism
• Lysine biosynthesis
• Tryptophan metabolism
• Glycosaminoglycan degradation
• Lipopolysaccharide biosynthesis
• alpha-Linolenic acid metabolism
• Benzoate degradation via CoA ligation
• Thiamine metabolism
• Nicotinate and nicotinamide metabolism
• Folate biosynthesis
• Limonene and pinene degradation
• Drug metabolism - other enzymes
• Biosynthesis of unsaturated fatty acids
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid
• Biosynthesis of alkaloids derived from histidine and purine

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
purine deoxyribonucleosides degradation I	4	3	3
purine ribonucleosides degradation	6	4	4
purine deoxyribonucleosides degradation II	3	2	2
pyrimidine ribonucleosides degradation	2	2	1
guanine and guanosine salvage I	2	2	1
xanthine and xanthosine salvage	2	2	1
adenine and adenosine salvage III	4	3	2
adenine and adenosine salvage I	2	1	1
superpathway of purine deoxyribonucleosides degradation	7	4	3
L-homoserine biosynthesis	3	3	1
pyrimidine deoxyribonucleosides degradation	3	3	1
superpathway of guanine and guanosine salvage	3	2	1
adenine and adenosine salvage V	3	1	1
nucleoside and nucleotide degradation (archaea)	10	5	3
UTP and CTP dephosphorylation I	7	5	2
purine nucleotides degradation II (aerobic)	11	8	3
dipicolinate biosynthesis	4	3	1
guanosine nucleotides degradation III	4	3	1
inosine 5'-phosphate degradation	4	3	1
spermidine biosynthesis II	4	2	1
L-methionine biosynthesis IV	4	2	1
L-tryptophan degradation to 2-amino-3-carboxymuconate semialdehyde	5	4	1
3-hydroxy-4-methyl-anthranilate biosynthesis II	5	3	1
ectoine biosynthesis	5	2	1
superpathway of pyrimidine ribonucleosides degradation	5	2	1
adenosine nucleotides degradation II	5	2	1
superpathway of L-threonine biosynthesis	6	6	1
superpathway of pyrimidine deoxyribonucleosides degradation	6	4	1
norspermidine biosynthesis	6	2	1
3-hydroxy-4-methyl-anthranilate biosynthesis I	6	2	1
nucleoside and nucleotide degradation (halobacteria)	6	1	1
fluoroacetate and fluorothreonine biosynthesis	6	1	1
superpathway of purine nucleotide salvage	14	12	2
L-lysine biosynthesis VI	7	6	1
pyrimidine deoxyribonucleotides de novo biosynthesis IV	7	6	1
L-lysine biosynthesis III	7	6	1
ureide biosynthesis	7	3	1
3-dehydroquinate biosynthesis II (archaea)	7	3	1
cremeomycin biosynthesis	7	2	1
salinosporamide A biosynthesis	15	4	2
pyrimidine deoxyribonucleotides biosynthesis from CTP	8	7	1
superpathway of L-homoserine and L-methionine biosynthesis	8	6	1
grixazone biosynthesis	8	2	1
superpathway of polyamine biosynthesis III	8	2	1
pyrimidine deoxyribonucleotides de novo biosynthesis I	9	9	1
NAD de novo biosynthesis II (from tryptophan)	9	8	1
L-lysine biosynthesis I	9	8	1
pyrimidine deoxyribonucleotides de novo biosynthesis III	9	8	1
superpathway of L-methionine biosynthesis (transsulfuration)	9	7	1
L-lysine biosynthesis II	9	7	1
superpathway of S-adenosyl-L-methionine biosynthesis	9	7	1
superpathway of L-methionine biosynthesis (by sulfhydrylation)	12	10	1
chorismate biosynthesis II (archaea)	12	8	1
L-tryptophan degradation IX	12	4	1
superpathway of L-isoleucine biosynthesis I	13	13	1
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis (E. coli)	14	11	1
superpathway of NAD biosynthesis in eukaryotes	14	11	1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis II	15	13	1
L-tryptophan degradation III (eukaryotic)	15	7	1
arsenic detoxification (mammals)	17	7	1
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis	18	17	1
superpathway of L-lysine, L-threonine and L-methionine biosynthesis I	18	15	1
L-tryptophan degradation XI (mammalian, via kynurenine)	23	8	1
aspartate superpathway	25	20	1
platensimycin biosynthesis	26	6	1