Experiment set2S556 for Synechocystis sp000284455 PCC 6803

Sodium nitrite nitrogen source

Group: nitrogen source
Media: BG11C_TES + Sodium nitrite (5 mM)
Culturing: Synechocystis_PCC6803_ML3, flask, 100 rpm orbital shaking, growth chamber, continous light, at 30 (C), shaken=100 rpm
By: Luis on 6/30/25
Media components: 17.6 mM Sodium nitrate, 0.2 mM Potassium phosphate dibasic, 0.3 mM Magnesium Sulfate Heptahydrate, 0.24 mM Calcium chloride dihydrate, 28.5 uM Citric Acid, 0.006 g/L Ferric ammonium citrate, 2.4 uM EDTA (disodium salt), 0.2 mM Sodium bicarbonate, 20 mM TES, Trace metal mix A5 (0.00286 g/L Boric Acid, 0.00181 g/L Manganese (II) chloride tetrahydrate, 0.000222 g/L Zinc sulfate heptahydrate, 0.00039 g/L Sodium Molybdate Dihydrate, 7.9e-05 g/L Copper (II) sulfate pentahydrate, 0.0494 mg/L Cobalt(II) nitrate hexahydrate)

Specific Phenotypes

For 29 genes in this experiment

For nitrogen source Sodium nitrite in Synechocystis sp000284455 PCC 6803

For nitrogen source Sodium nitrite across organisms

SEED Subsystems

Subsystem	#Specific
ABC transporter branched-chain amino acid (TC 3.A.1.4.1)	1
Bacterial Cell Division	1
DNA repair, bacterial UvrD and related helicases	1
Folate Biosynthesis	1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis	1
Glycogen metabolism	1
NusA-TFII Cluster	1
Potassium homeostasis	1
Proteasome bacterial	1
Queuosine-Archaeosine Biosynthesis	1
Trehalose Biosynthesis	1
ZZ gjo need homes	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
• Pentose and glucuronate interconversions
• Ascorbate and aldarate metabolism
• Biosynthesis of steroids
• Ubiquinone and menaquinone biosynthesis
• Urea cycle and metabolism of amino groups
• Glutamate metabolism
• Lysine degradation
• Benzoate degradation via hydroxylation
• Tryptophan metabolism
• D-Glutamine and D-glutamate metabolism
• Nucleotide sugars metabolism
• Glycosaminoglycan degradation
• Lipopolysaccharide biosynthesis
• Peptidoglycan biosynthesis
• Carbazole degradation
• Biotin metabolism
• Carotenoid biosynthesis - General
• Nitrogen metabolism
• Biosynthesis of alkaloids derived from ornithine, lysine and nicotinic acid

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
L-glutamine degradation I	1	1	1
L-glutamate biosynthesis I	2	2	1
ammonia assimilation cycle III	3	3	1
glutaminyl-tRNAgln biosynthesis via transamidation	4	4	1
L-asparagine biosynthesis III (tRNA-dependent)	4	4	1
queuosine biosynthesis I (de novo)	4	3	1
S-(2-succinyl)-L-cysteine degradation	4	2	1
5,5'-dehydrodivanillate degradation	4	1	1
2-amino-3-carboxymuconate semialdehyde degradation to 2-hydroxypentadienoate	4	1	1
queuosine biosynthesis III (queuosine salvage)	5	2	1
2-amino-3-carboxymuconate semialdehyde degradation to glutaryl-CoA	5	1	1
S-benzyl-L-cysteine degradation	5	1	1
L-glutamate and L-glutamine biosynthesis	7	6	1
2-nitrobenzoate degradation I	7	1	1
L-citrulline biosynthesis	8	5	1
superpathway of L-citrulline metabolism	12	7	1
L-tryptophan degradation XII (Geobacillus)	12	2	1
L-tryptophan degradation IX	12	2	1
L-tryptophan degradation III (eukaryotic)	15	3	1
L-tryptophan degradation XI (mammalian, via kynurenine)	23	5	1