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. 2014 Aug;80(15):4626–4639. doi: 10.1128/AEM.00592-14

TABLE 4.

Taxonomic affiliations of pyrosequencing reads after filteringa

Taxonomic group % Contribution
Dive 1758 CT8 SC1 (cold seep surface layer; gray mat)
 Dive 1758 CT8 SC6 (cold seep bottom layer; gray mat)
 Dive 1766 CT3 SH1 (hydrothermal vent surface layer; white mat)
Zhou
 Kit
 Zhou
 Kit
 Zhou (replicate 1)
 Kit (replicate 1)
 Zhou (replicate 2)
 Kit (replicate 2)
Arch1 Arch2 Arch1 Arch2 Arch1 Arch2 Arch1 Arch2 Arch1 Arch2 Arch1 Arch2 Arch1 Arch2 Arch1 Arch2
AAG 2.86 3.58 0.08 0.08
DHVE-6 8.34 0.40 7.78 0.08 25.50 24.72 0.08 0.95 1.59 0.87 0.64 1.43 0.71 1.51 1.51
DHVE-8 1.19 0.24 0.24 0.32 0.08 0.08 0.48 0.40 0.40 0.48 0.87 0.24
RC-V 12.39 2.07 7.31 1.11 13.82 0.32 5.88 0.40 7.47 1.43 3.65 1.91 3.89 0.56 3.10 1.43
Thermoprotei
    Desulfurococcales 0.16 0.64 0.71 0.72
    Thermoproteales 0.08 0.79 0.32 0.08 0.08 0.16
Korarchaeota 0.08 0.16 0.16 0.24 0.08
Thaumarchaeota
    MCG 1.59 0.87 0.24 3.57 0.16 10.89 0.48 1.75 1.59 1.59 1.35 1.99 3.26 0.79 1.99
    MBG-B 0.95 3.18 1.35 1.19 3.26 2.86 8.19 3.89 1.51 1.51 0.64 0.56 1.19 0.71 0.79 0.24
    MG-I 0.16 0.32 0.32 0.08 0.79 0.16 0.16 0.32 0.40 0.08 0.24
    Other Thaumarchaeota 0.08 0.16 0.08
Euryarchaeota
    Archaeoglobales 0.32 0.56 0.48 0.08 0.40
    Halobacteriales 0.08 0.08 0.08
    Thermococcales 0.08 0.40 1.27 0.24 2.62 1.43 0.08 1.99
    MBG-D 0.24 0.56 26.21 19.71 12.31 7.07 17.95 0.08 10.09 0.08
    Other Thermoplasmatales 0.56 0.08 0.48 0.56 4.53 0.56 4.61 0.87 6.91 6.20 0.08
    MBG-E 0.08 0.08 0.40 0.32 0.08 0.08 0.08
    SAGMEG 0.32 0.08 0.08 0.16 0.48 0.16 0.16 0.08 0.24 0.08 0.16
    GEG 0.24 0.24 0.08 2.22 0.08 0.79 2.38 0.79 3.10 0.95 5.64 0.64 3.49
    ANME-1 Guaymas 0.32 0.64 0.79 2.70 0.56 0.87 0.71 2.15
    ANME-1 0.08 0.56 0.40 0.48 92.45 0.08 86.34 14.30 55.60 67.12 60.13 17.71 63.22 67.04 65.74
    ANME-2ab 17.87 24.70 23.27 23.75 3.34 0.71 2.70 1.43 0.08 0.32 0.08 0.08 0.64
    ANME-2c 48.61 57.43 50.28 61.87 12.47 2.38 12.32 3.97 49.88 25.97 7.70 22.48 38.05 21.13 4.13 16.61
    ANME-2-Sonora 0.71 1.11 0.16 0.08
    ANME-2 0.08 1.59 0.79 4.21 0.08 0.24 4.05 1.19 0.48 0.24 0.24 0.72
    ANME-3 6.59 3.81 0.24 0.16 0.32 0.87 0.40 0.48 0.48
    GoM-Arc-I 0.08 0.24 0.32 0.08 1.11 0.32 0.48 0.16 0.95 0.08 1.59
    Other Methanosarcinales 1.19 2.94 0.40 2.78 0.08 0.08 0.32 0.95 0.40 1.43 0.08 0.24 0.40 1.27 0.32 0.48
    Methanomicrobiales 0.24 0.08 0.32 0.08 0.08 0.08
    Methanocellales 0.08 0.32 0.08
    Methanobacteriales 0.08 0.08 0.48 0.24 0.40
Other Archaea 5.40 0.16 5.48 0.08 4.53 4.53 0.32 2.22 2.30 1.67 0.95 2.62 1.19 1.27 2.38
a

Results are given for Archaea, according to sample, DNA extraction method, and primer set used. Empty cells indicate that no reads were affiliated with the corresponding microbial group.