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Table 2 Inferred trait clusters with positive associations between body sites

From: Exploring the functional composition of the human microbiome using a hand-curated microbial trait database

Cluster

Traits

Positive associations

2

Use of: alaninamide, histidine, leucine, pyruvic acid methyl ester

 

3

OptimalpH, Facultative, Cocci, Use of:fructose, galactose, glucose,

Buccal mucosa, Tongue

lactose, mannose, methyl beta D glucoside, N acetylglucosamine, sucrose

Anterior nares, Supragingival plaque

4

LengthMajorAxis, Enzyme Assays: esculin aesculin hydrolysis,

Posterior fornix

Use of: cellobiose, glycogen, maltose, raffinose, salicin, starch, yeast extract

 

5

Max. Temp., Optimal NaCl, Min. NaCl, Max. NaCl, Genome Length, Anaerobe, Single, Clump, Rod,

Stool,

Enzyme Assays: urease, acid phosphatase, alkaline phosphatase, alpha galactosidase,

Posterior fornix,

beta galactosidase, acetoin, phosphatase, DNA degradation, Gas Production: indole, hydrogen sulfide,

Retroauricular crease,

Use of: arabinose, propionate, rhamnose, succinate, Tween 80, xylose

Anterior nares, Tongue

7

Use of: phenylacetate, putrescine, quinic acid

Supragingival plaque

10

Use of: arginine, glycine, phenylalanine, serine, threonine

Tongue

11

Min. pH, Max. pH

Posterior fornix

12

Enzyme Assays: tellurite reductase, Use of: citrate

 

14

Optimal Temp., Enzyme Assays: gelatinase, trypsin,

Anterior nares,

Use of: acetate, galacturonate, glycerol, lactate,

Retroauricular crease,

mannitol, melibiose, ornithine, ribose, sorbitol, trehalose

Supragingival plaque, Tongue

15

Use of: butanol, caprate

 

16

GC Content, Min. Temp., Motile, Aerobe, Chain, Gas Production: ammonia, isovaleric acid,

Retroauricular crease,

Enzyme Assays: catalase, oxidase, arylsulfatase, phosphohydrolase,

Supragingival plaque,

Use of: aspartate, dextrin, formate, glutamate, malate, proline, pyruvate, suberate, urea, sugars

Tongue

17

Use of: adonitol, alanine

Tongue

18

Use of: valerate, 2 aminethanol, 2 ketogluconate, 2 3 butanediol,

Tongue

3 hydroxybenzoate, 3 hydroxybutyrate, 4 hydroxybenzoate, 5 ketogluconate

 
  1. Bold and starred (\(\star\)) site names signify that a given cluster-site interaction is the strongest positive interaction observed for that site