Experiment set4IT019 for Rhodanobacter denitrificans FW104-10B01

R2A with Calcium chloride dihydrate 250 mM

Group: stress
Media: R2A + Calcium chloride dihydrate (250 mM)
Culturing: rhodanobacter_10B01_ML12, 96 deep-well microplate; 0.8 mL volume, Aerobic, at 30 (C), shaken=700 rpm
By: Hans Carlson and Trenton Owens on 22-Jun-21
Media components: 0.5 g/L Bacto Peptone, 0.5 g/L casamino acids, 0.5 g/L Yeast Extract, 0.5 g/L D-Glucose, 0.5 g/L Starch, 0.3 g/L Potassium phosphate dibasic, 0.05 g/L Magnesium Sulfate Heptahydrate, 0.3 g/L Sodium pyruvate
Growth plate: 3 E4

Specific Phenotypes

For 17 genes in this experiment

For stress Calcium chloride dihydrate in Rhodanobacter denitrificans FW104-10B01

For stress Calcium chloride dihydrate across organisms

SEED Subsystems

Subsystem	#Specific
ATP-dependent RNA helicases, bacterial	1
Cysteine Biosynthesis	1
DNA-replication	1
O-Methyl Phosphoramidate Capsule Modification in Campylobacter	1
Terminal cytochrome C oxidases	1
Ton and Tol transport systems	1
Transcription factors bacterial	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Purine metabolism
• Selenoamino acid metabolism
• Sulfur metabolism
• Oxidative phosphorylation
• Puromycin biosynthesis
• Nucleotide sugars metabolism
• Lipopolysaccharide biosynthesis
• alpha-Linolenic acid metabolism
• Trinitrotoluene degradation
• Folate biosynthesis
• Porphyrin and chlorophyll metabolism
• Carotenoid biosynthesis - General
• Alkaloid biosynthesis I
• Insect hormone biosynthesis

MetaCyc Pathways

Pathways that contain genes with specific phenotypes:

Pathway	#Steps	#Present	#Specific
sulfate activation for sulfonation	2	2	2
assimilatory sulfate reduction I	4	4	2
assimilatory sulfate reduction IV	4	3	2
arsenite to oxygen electron transfer	2	1	1
assimilatory sulfate reduction III	3	3	1
assimilatory sulfate reduction II	3	1	1
sulfite oxidation III	3	1	1
arsenite to oxygen electron transfer (via azurin)	3	1	1
aerobic respiration I (cytochrome c)	4	3	1
aerobic respiration II (cytochrome c) (yeast)	4	2	1
superpathway of sulfate assimilation and cysteine biosynthesis	9	8	2
superpathway of sulfur amino acid biosynthesis (Saccharomyces cerevisiae)	10	8	2
selenate reduction	5	2	1
dissimilatory sulfate reduction I (to hydrogen sufide))	5	1	1
superpathway of L-methionine biosynthesis (by sulfhydrylation)	12	11	2
Fe(II) oxidation	6	2	1
superpathway of sulfur metabolism (Desulfocapsa sulfoexigens)	6	1	1
superpathway of thiosulfate metabolism (Desulfovibrio sulfodismutans)	6	1	1
superpathway of sulfide oxidation (phototrophic sulfur bacteria)	12	3	1
superpathway of seleno-compound metabolism	19	6	1