Table 2 Summary of the most discriminative genes found in genomes of M. smithii and Cand. M. intestini

From: Targeted isolation of Methanobrevibacter strains from fecal samples expands the cultivated human archaeome

eggNOG orthologous groups

Prevalence in M. smithii genomes

Prevalence in Cand. M. intestini genomes

COG category

Genomic annotation (EggNOG)

Functional annotation (DeepFri)

count (total/ present)

present in % of genomes

count (total/ present)

present in % of genomes

COG0725

12/12

100

0/10

0

P

ABC-type molybdate transport system, periplasmic component (modA)

ion binding (GO:0043167)**

COG4149

12/12

100

0/10

0

P

ABC-type molybdate transport system, permease component (modB)

regulation of metabolic process (GO:0080090)*/**;

catalytic activity (GO:0003824)**; membrane-associated (GO:0016020)**

2EI95

12/12

100

1/10

10

F/G

unknown function

nucleotide-sugar transmembrane transporter activity (GO:0005338) **

COG4925

11/12

91.67

1/10

10

I

sulfurtransferase activity; cyclophilin-like domain-containing protein

transferase activity (GO:0016740)

COG0586

0/12

0

10/10

100

S

Uncharacterized membrane protein DedA, SNARE-associated domain

nd

COG2076

0/12

0

10/10

100

P

Membrane transporters of cations and cationic drugs

nd

arCOG00818

1/12

8.33

10/10

100

S

AbrB family transcriptional regulator

nd

2AVB5

0/12

0

9/10

90

F/G

unknown function

nucleotide-sugar transmembrane transporter activity (GO:0005338)

2C5WB

0/12

0

9/10

90

CHQ

unknown function

oxidoreductase (GO:0016491); oxalyl-CoA decarboxylase activity (GO:0008949)

2DDW5

0/12

0

9/10

90

G

unknown function

glycosyltransferase activity (GO:0016757); oxidoreductase (GO:0016616) involved in the steroid biosynthetic process (GO:0006694)

COG5015

0/12

0

9/10

90

S

Pyridoxamine 5’-phosphate oxidase family

nd

COG1733

0/12

0

9/10

90

K

HxlR-like helix-turn-helix

nd

  1. Table shows counts and percentages of genomes in which the respective function is present. Distinguishing characteristics derived from high-quality genomes are emphasized in bold.1
  2. P: Inorganic ion transport and metabolism, I: Lipid metabolism, S: Function unknown, K: Transcription, F: Nucleotide transport and metabolism, G: Carbohydrate transport and metabolism, C: Energy production and conversion, H: Coenzyme transport and metabolism, Q: Secondary metabolites biosynthesis, transport and catabolism. N.d.: not done. **: High quality annotation (annotations with score ≥ 0.5); *: medium quality annotation (annotations with score ≥ 0.25).
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