Skip to main content

Table 2 Phylosubsystems that are overrepresented in AMD dataset versus SEED dataset with 99% confidence at a sample size of 145,000 proteins.

From: An application of statistics to comparative metagenomics

# Subsystem Classification Domain
1 Arginine degradation Amino Acids and Derivatives Archaea
2 Chorismate Synthesis Amino Acids and Derivatives Archaea
3 Histidine Degradation Amino Acids and Derivatives Archaea
4 Leucine Biosynthesis Amino Acids and Derivatives Archaea
5 Calvin-Benson cycle Carbohydrates Archaea
6 Embden-Meyerhof and Gluconeogenesis Carbohydrates Archaea
7 Methylcitrate cycle Carbohydrates Archaea
8 Riboflavin metabolism Cofactors, Vitamins, Prosthetic Groups, Pigments Archaea
9 Conserved tRNAs Experimental Subsystems Archaea
10 Fatty acid metabolism Fatty Acids and Lipids Archaea
11 Fatty acid oxidation pathway Fatty Acids and Lipids Archaea
12 de-novo Purine Biosynthesis Nucleosides and Nucleotides Archaea
13 de-novo Pyrimidine Biosynthesis Nucleosides and Nucleotides Archaea
14 Pyrimidine conversions Nucleosides and Nucleotides Archaea
15 Ribosome LSU (eukaryotic and archaeal) Protein Metabolism Archaea
16 Ribosome SSU (eukaryotic and archaeal) Protein Metabolism Archaea
17 Translation initiation factors (eukaryotic and archaeal) Protein Metabolism Archaea
18 tRNA aminoacylation RNA metabolism Bacteria
19 TTSS transporters Virulence Bacteria