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Table 1 The 40 most frequently found microbial species in the Bacteria domain

From: Characterization of a biogas-producing microbial community by short-read next generation DNA sequencing

Phylum Class Species Abundance Cellulase H2 production
Firmicutes Clostridia Clostridium thermocellum 406 + +
Firmicutes Clostridia Alkaliphilus metalliredigens 310 - +
Firmicutes Clostridia Desulfitobacterium hafniense 246 - +
Firmicutes Clostridia Caldanaerobacter subterraneus 237 - +
Firmicutes Clostridia Pelotomaculum thermopropionicum 227 - +
Firmicutes Clostridia Finegoldia magna 208 - +
Firmicutes Clostridia Syntrophomonas wolfei 203 - +
Firmicutes Clostridia Clostridium difficile 188 + +
Firmicutes Clostridia Moorella thermoacetica 186 - +
Firmicutes Clostridia Clostridium kluyveri 176 n.d. +
Firmicutes Clostridia Carboxydothermus hydrogenoformans 161 - +
Firmicutes Clostridia Heliobacterium modesticaldum 150 - +
Firmicutes Clostridia Desulfotomaculum reducens 139 - +
Firmicutes Clostridia Clostridium cellulolyticum 126 + +
Firmicutes Bacilli Enterococcus faecalis 112 n.d. +
Firmicutes Bacilli Bacillus cereus 102 + +
Firmicutes Bacilli Streptococcus suis 93 + -
Firmicutes Clostridia Caldicellulosiruptor saccharolyticus 93 + +
Firmicutes Clostridia Clostridium perfringens 87 - +
Firmicutes Clostridia Thermoanaerobacterium thermosaccharolyticum 86 - +
Firmicutes Clostridia Ruminococcus albus 83 + +
Firmicutes Clostridia Clostridium saccharolyticum 78 + +
Firmicutes Clostridia Clostridium acetobutylicum 63 + +
Firmicutes Bacilli Bacillus thuringiensis 62 + +
Firmicutes Bacilli Streptococcus pneumoniae 61 - n.d.
Firmicutes Bacilli Listeria monocytogenes 61 n.d. n.d.
Firmicutes Bacilli Streptococcus agalactiae 57 n.d. -
Firmicutes Bacilli Enterococcus faecium 57 n.d. +
Firmicutes Clostridia Anaerotruncus colihominis 55 n.d. n.d.
Firmicutes Clostridia Faecalibacterium prausnitzii 54 - +
Firmicutes Clostridia Clostridium carboxidivorans 49 - +
Firmicutes Bacilli Staphylococcus epidermidis 44 + +
Bacteroidetes Bacteroidia Bacteroides capillosus 73 + +
Bacteroidetes Bacteroidia Bacteroides thetaiotaomicron 46 + +
Bacteroidetes Bacteroidia Parabacteroides distasonis 46 - +
Tenericutes Mollicutes Acholeplasma laidlawii 247 - -
Proteabacteria Gammaproteobacteria Escherichia coli 23 - +
Actinobacteria Actinobacteria (class) Slackia heliotrinireducens 70 - +
Actinobacteria Actinobacteria (class) Bifidobacterium longum 46 - -
Unclassified (derived from Bacteria) Unclassified (derived from Bacteria) Candidatus Cloacamonas acidaminovorans 889 - +
  1. Results were based on best M5nr database hits. The relative abundance values and presence of cellulose or hydrogenase activities are indicated. n.d. = not determined, i.e., no information was found in the protein databases or indicated as hypothetical protein.