Experiment set2H21 for Marinobacter adhaerens HP15

marine broth with Cisplatin 0.025 mg/ml

Group: stress
Media: marine_broth_2216 + Cisplatin (0.025 mg/ml)
Culturing: Marino_ML2, 48 well microplate; Tecan Infinite F200, Aerobic, at 30 (C), shaken=orbital
By: Jordan on 9/9/2013
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: 680 E7,E8

Specific Phenotypes

For 50 genes in this experiment

For stress Cisplatin in Marinobacter adhaerens HP15

For stress Cisplatin across organisms

SEED Subsystems

Subsystem	#Specific
DNA-replication	6
DNA repair, UvrABC system	3
DNA repair, bacterial	3
DNA repair, bacterial RecFOR pathway	2
ABC transporter branched-chain amino acid (TC 3.A.1.4.1)	1
Ammonia assimilation	1
DNA Repair Base Excision	1
DNA repair, bacterial DinG and relatives	1
DNA repair, bacterial MutL-MutS system	1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis	1
Glycolate, glyoxylate interconversions	1
Photorespiration (oxidative C2 cycle)	1
Queuosine-Archaeosine Biosynthesis	1
RNA processing and degradation, bacterial	1
Transcription factors bacterial	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:

• Purine metabolism
• Nitrogen metabolism
• Pyrimidine metabolism
• Glutamate metabolism
• Methionine metabolism
• Cysteine metabolism
• Selenoamino acid metabolism
• Lipopolysaccharide biosynthesis
• Glyoxylate and dicarboxylate metabolism
• Folate biosynthesis
• Sulfur metabolism
• 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 I	1	1	1
L-glutamine degradation II	1	1	1
ammonia assimilation cycle III	3	3	2
glycolate and glyoxylate degradation II	2	2	1
glycolate and glyoxylate degradation III	3	1	1
L-glutamate and L-glutamine biosynthesis	7	6	2
glutaminyl-tRNAgln biosynthesis via transamidation	4	4	1
L-asparagine biosynthesis III (tRNA-dependent)	4	4	1
glycolate and glyoxylate degradation I	4	2	1
tRNA processing	10	10	2
superpathway of glycol metabolism and degradation	7	4	1
L-citrulline biosynthesis	8	7	1
photorespiration III	9	6	1
photorespiration II	10	6	1
superpathway of L-citrulline metabolism	12	9	1