Skip to main content

Table 2 Percentages (%) of quality and human filtered reads assigned at the ranks of superkingdom and phylum from three control bile samples subjected to shotgun metagenomics

From: The human gallbladder microbiome is related to the physiological state and the biliary metabolic profile

Taxonomic assignment Sample code
Superkingdom Phyluma H-04 H-05 H-06
Not assigned   32.67 20.96 33.13
Archaea   0.02 0.06 0.04
Eukaryota   2.11 0.21 1.83
Viruses   0.12 5.58 0.20
Bacteria   65.08 73.19 64.79
  Actinobacteria 13.17 2.91 12.23
  Bacteroidetes 34.36 34.22 35.60
  Firmicutes 22.47 56.51 23.10
  Proteobacteria 27.80 5.46 27.06
  Verrucomicrobia 0.16 0.43 0.25
  Chlamydiae 0.73 0.01 0.55
  Acidobacteria 0.18 0.04 0.14
  Planctomycetes 0.20 0.05 0.20
  Spirochaetes 0.14 0.07 0.12
  Fusobacteria 0.09 0.05 0.10
  Tenericutes 0.05 0.08 0.09
  Deinococus-Thermus 0.02 0.00 0.01
  Fibrobacteres 0.00 0.00 0.02
  Synergistetes 0.00 0.02 0.00
  Cyanobacteria 0.11 0.03 0.08
  Chloroflexi 0.03 0.01 0.03
  Chlorobi 0.00 0.00 0.02
  Nitrospirae 0.00 0.00 0.01
  Unclassified bacteria 0.49 0.21 0.38
  1. aAbundances of different phyla are related to total assigned bacteria sequences