Experiment set7IT080 for Phaeobacter inhibens DSM 17395

marine broth with Cephalothin sodium salt 0.001 mg/ml

Group: stress
Media: marine_broth_2216 + Cephalothin sodium salt (0.001 mg/ml)
Culturing: Phaeo_ML1, 48 well microplate; Tecan Infinite F200, Aerobic, at 25 (C), shaken=orbital
By: Adam on marchapr14
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: 898 D1,D2

Specific Phenotypes

For 14 genes in this experiment

For stress Cephalothin sodium salt in Phaeobacter inhibens DSM 17395

For stress Cephalothin sodium salt across organisms

SEED Subsystems

Subsystem	#Specific
2-phosphoglycolate salvage	1
Ammonia assimilation	1
Carotenoids	1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis	1
Glycolate, glyoxylate interconversions	1
Photorespiration (oxidative C2 cycle)	1
Ribonucleotide reduction	1
YjeE	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Ascorbate and aldarate metabolism
• Ubiquinone and menaquinone biosynthesis
• Biosynthesis of steroids
• Purine metabolism
• Pyrimidine metabolism
• Glutamate metabolism
• gamma-Hexachlorocyclohexane degradation
• Tryptophan metabolism
• Benzoxazinone biosynthesis
• Glutathione metabolism
• Nucleotide sugars metabolism
• Glycosaminoglycan degradation
• alpha-Linolenic acid metabolism
• Sphingolipid metabolism
• Naphthalene and anthracene degradation
• 1,4-Dichlorobenzene degradation
• Glyoxylate and dicarboxylate metabolism
• Limonene and pinene degradation
• Diterpenoid biosynthesis
• Brassinosteroid biosynthesis
• Carotenoid biosynthesis - General
• Nitrogen metabolism
• Phenylpropanoid biosynthesis
• Biosynthesis of unsaturated fatty acids
• Biosynthesis of phenylpropanoids
• Biosynthesis of terpenoids and steroids
• 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-glutamate biosynthesis I	2	2	2
L-glutamine degradation II	1	1	1
L-glutamine degradation I	1	1	1
ammonia assimilation cycle III	3	3	2
adenosine deoxyribonucleotides de novo biosynthesis I	2	2	1
guanosine deoxyribonucleotides de novo biosynthesis I	2	2	1
guanosine deoxyribonucleotides de novo biosynthesis II	4	3	2
adenosine deoxyribonucleotides de novo biosynthesis II	4	3	2
L-glutamate and L-glutamine biosynthesis	7	7	2
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis (E. coli)	14	12	4
superpathway of adenosine nucleotides de novo biosynthesis II	7	6	2
glutaminyl-tRNAgln biosynthesis via transamidation	4	4	1
L-asparagine biosynthesis III (tRNA-dependent)	4	4	1
superpathway of guanosine nucleotides de novo biosynthesis II	8	7	2
pyrimidine deoxyribonucleotides de novo biosynthesis I	9	9	2
pyrimidine deoxyribonucleotides de novo biosynthesis III	9	8	2
superpathway of adenosine nucleotides de novo biosynthesis I	5	5	1
superpathway of guanosine nucleotides de novo biosynthesis I	6	6	1
superpathway of purine nucleotides de novo biosynthesis II	26	23	4
pyrimidine deoxyribonucleotides de novo biosynthesis IV	7	6	1
L-citrulline biosynthesis	8	8	1
pyrimidine deoxyribonucleotides biosynthesis from CTP	8	6	1
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis	18	17	2
photorespiration I	9	7	1
photorespiration III	9	7	1
photorespiration II	10	7	1
peptidoglycan recycling II	10	2	1
superpathway of purine nucleotides de novo biosynthesis I	21	21	2
superpathway of histidine, purine, and pyrimidine biosynthesis	46	42	4
superpathway of L-citrulline metabolism	12	10	1
superpathway of purine nucleotide salvage	14	13	1
peptidoglycan recycling I	14	8	1