Experiment setAH23 for Shewanella oneidensis MR-1

M2 center

Group: motility
Media: LB + Agar (3 g/L)
Culturing: MR1_ML3, Agar plate, Aerobic, at 30 (C), shaken=0 rpm, (Solid)
By: Adam on 8/28/2013
Media components: 10 g/L Tryptone, 5 g/L Yeast Extract, 5 g/L Sodium Chloride

Specific Phenotypes

For 20 genes in this experiment

For motility Agar in Shewanella oneidensis MR-1

For motility Agar across organisms

SEED Subsystems

Subsystem	#Specific
Bacterial Cytoskeleton	3
Bacterial Cell Division	2
Two cell division clusters relating to chromosome partitioning	2
Ammonia assimilation	1
Bacterial hemoglobins	1
Glutamine, Glutamate, Aspartate and Asparagine Biosynthesis	1
Nudix proteins (nucleoside triphosphate hydrolases)	1
Peptidoglycan Biosynthesis	1
Plasmid replication	1
Twin-arginine translocation system	1
YcfH	1

Metabolic Maps

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

Maps containing gene(s) with specific phenotypes:

• Pyrimidine metabolism
• Glutamate metabolism
• 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-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
pyrimidine deoxyribonucleotides dephosphorylation	3	1	1
L-glutamate and L-glutamine biosynthesis	7	6	2
glutaminyl-tRNAgln biosynthesis via transamidation	4	1	1
L-asparagine biosynthesis III (tRNA-dependent)	4	1	1
pyrimidine deoxyribonucleotides de novo biosynthesis II	7	7	1
L-citrulline biosynthesis	8	7	1
pyrimidine deoxyribonucleotides de novo biosynthesis I	9	9	1
pyrimidine deoxyribonucleotides de novo biosynthesis III	9	8	1
superpathway of L-citrulline metabolism	12	9	1
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis (E. coli)	14	14	1
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis	18	18	1