Skip to main content

Table 3 Most abundant glycosyl hydrolase families found in different metagenome samples

From: Bioprospecting metagenomes: glycosyl hydrolases for converting biomass

Metagenome sourcea Glycosyl hydrolase matchesb Most abundant glycosyl hydrolase familyc
Marine archaeal anaerobic methane oxidation community (methane oxidation, sulfate reducer) [62] 3 GH16 (33%), GH2 (33%), GH38 (33%)
Acid mine drainage (acidic, metal tolerance, pink biofilm) [12] 73 GH13 (26%), GH15 (21%), GH57 (12%), GH28 (9%), GH18 (7%)
Human gut community (gut microbiome of human) [63] 705 GH13 (20%), GH3 (11%), GH2 (9%), GH1 (7%), GH31 (5%)
Hypersaline mat (marine microbial communities) [64] 786 GH13 (24%), GH2 (9%), GH3 (7%), GH65 (4%), GH57 (4%)
Lake Washington formaldehyde enrichment (13C-labeled formaldehyde; 13C-labeled DNA isolated by CsCl purification) [21] 397 GH13 (15%), GH23 (9%), GH3 (8%), GH2 (8%), GH94 (8%)
Lake Washington formate enrichment (13C-labeled formate; 13C-labeled DNA isolated by CsCl purification) [21] 114 GH13 (28%), GH23 (10%), GH2 (7%), GH94 (6%), GH28 (4%), GH8 (4%)
Lake Washington methane enrichment (13C-labeled methane; 13C-labeled DNA isolated by CsCl purification) [21] 428 GH13 (17%), GH94 (10%), GH23 (8%), GH3 (8%), GH57 (5%)
Lake Washington methanol enrichment (13C-labeled methanol; 13C-labeled DNA isolated by CsCl purification) [21] 373 GH13 (16%), GH23 (9%), GH3 (8%), GH94 (8%), GH2 (5%)
Lake Washington methylamine enrichment (13C-labeled methylamine; 13C-labeled DNA isolated by CsCl purification) [21] 285 GH23 (20%), GH13 (13%), GH57 (8%), GH17 (7%), GH3 (6%)
Mouse gut community (lean mouse) [65] 119 GH3 (10%), GH43 (9%), GH94 (9%), GH2 (8%), GH13 (8%)
Mouse gut community (obese mouse) [65] 58 GH68 (12%), GH13 (10%), GH43 (10%), GH94 (10%), GH2 (10%), GH3 (10%)
Olavius algarvensis microbiome delta (sulfate reducer, symbiont) [66] 41 GH23 (41%), GH13 (12%), GH57 (7%), GH2 (5%), GH3 (5%), GH5 (5%), GH28 (5%), GH43 (5%)
Olavius algarvensis microbiome gamma (sulfate reducer, symbiont) [66] 16 GH23 (31%), GH13 (19%), GH2 (6%), GH3 (6%), GH28 (6%), GH31 (6%), GH57 (6%), GH73 (6%), GH77 (6%), GH103 (6%)
Singapore air sample [67] 514 GH13 (13%), GH3 (9%), GH23 (9%), GH15 (8%), GH28 (5%)
Sludge Australian Phrap assembly (phosphate removal) [68] 177 GH13 (28%), GH23 (15%), GH16 (8%), GH103 (7%), GH3 (7%)
Sludge US Jazz assembly (phosphate removal) [68] 126 GH13 (20%), GH23 (12%), GH3 (9%), GH16 (7%), GH2 (6%)
Sludge US Phrap assembly (phosphate removal) [68] 260 GH13 (17%), GH23 (13%), GH3 (8%), GH16 (7%), GH94 (7%)
Soil diversa silage (farm silage surface soil) [69] 1,078 GH13 (22%), GH3 (9%), GH94 (8%), GH43 (5%), GH15 (5%), GH2 (5%)
TM7 (human oral microflora) [70] 14 GH13 (29%), GH1 (21%), GH57 (21%), GH4 (7%), GH25 (7%), GH 28 (7%), GH73 (7%)
Termite gut (cellulolytic cellulose degrader, lignin degrader, symbiont) [55] 1,267 GH13 (12%), GH94 (12%), GH5 (9%), GH3 (8%), GH2 (6%)
Uranium-contaminated groundwater (acidophile) 71 GH23 (18%), GH13 (10%), GH94 (7%), GH17 (6%), GH28 (6%), GH3 (6%)
Whalefall sample (barophile) [69, 71] 433 GH23 (17%), GH13 (13%), GH3 (12%), GH2 (6%), GH103 (5%)
  1. aData source: IMG/M [18]; btotal number of GHase matches in each metagenome are given; translated sequences from all 43 environmental metagenome projects were blast-searched against the CAZy sequences for homologues of glycosyl hydrolases using an e value < 10-40 as a cut-off threshold; cthe five most abundant glycosyl hydrolase families are listed. GHX is short for glycosyl hydrolase family X; percentages of each glycosyl hydrolase family are indicated inside parentheses.