TABLE 3

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)
ZhouKitZhouKitZhou replicate 1Kit replicate 1Zhou vreplicate 2Kit replicate 2
Bact1Bact2Bact1Bact2Bact1Bact2Bact1Bact2Bact1Bact2Bact1Bact2Bact1Bact2Bact1Bact2
Acidobacteria0.130.720.070.591.120.720.260.792.833.423.952.962.303.293.363.55
Actinobacteria3.752.575.535.130.531.841.453.160.330.860.070.260.460.720.861.18
Caldithrix0.390.990.992.560.072.500.074.470.794.670.995.400.074.01
CFB18.032.3720.663.4212.963.0917.303.1614.613.3610.263.169.551.8412.242.17
Chloroflexi0.460.200.463.553.164.343.552.961.581.321.512.041.652.631.84
Firmicutes1.511.510.590.924.011.711.781.450.663.880.993.553.294.411.972.83
GBG (Guaymas bacterial group)0.070.0717.3817.3020.0019.7418.8920.6116.2521.97
Gemmatimonadetes0.070.390.330.200.720.131.120.131.842.430.071.510.072.37
JS-16.511.977.305.330.070.200.390.070.200.070.07
Mollicutes0.070.130.460.200.330.260.130.070.530.071.711.32
NC-100.070.130.660.590.660.390.530.260.200.390.130.460.330.20
OD10.130.262.436.322.308.422.963.36
OP30.070.200.130.790.070.390.070.860.260.990.070.661.18
OP80.070.330.070.390.200.330.990.590.200.720.070.790.460.59
OP90.070.460.070.390.720.530.53
Planctomycetes0.390.390.200.260.920.392.170.202.110.460.330.532.440.991.970.20
SAR4060.130.330.331.050.461.310.070.070.130.070.200.13
Spirochaetes0.721.640.530.590.461.053.031.840.201.780.130.860.462.041.321.84
Thermodesulfobacteria0.130.070.070.390.390.330.260.460.070.07
Thermotogales0.074.080.330.070.070.390.130.130.13
Verrucomicrobia2.040.720.860.920.330.791.910.530.921.250.790.721.251.510.531.58
WS3/HG20.860.330.790.072.761.582.242.170.071.321.780.790.130.660.330.46
Proteobacteria
    Alphaproteobacteria
        Rhodobacterales0.390.070.070.130.200.070.200.130.130.070.13
        Other Alphaproteobacteria0.200.260.200.390.330.390.130.130.260.390.260.070.130.070.26
    Deltaproteobacteria
        Myxococcales0.200.070.130.130.200.330.530.390.390.130.660.260.33
        Desulfuromonadales2.432.042.572.960.791.053.290.460.200.330.530.590.260.720.990.46
        Desulfobacterales
            Desulfobulbaceae
                SEEP-SRB32.503.224.675.201.051.181.510.590.991.581.120.720.201.051.252.11
                SEEP-SRB48.224.544.473.881.180.590.390.390.260.790.070.260.260.660.200.79
                Other11.6410.005.927.110.861.252.240.922.761.910.461.511.321.450.791.12
            Desulfobacteraceae
                SEEP-SRB1a3.424.215.665.460.591.050.460.720.130.390.330.330.390.130.13
                SEEP-SRB1b0.200.070.722.1125.312.6324.870.070.130.260.070.070.200.26
                SEEP-SRB1c0.071.250.071.250.590.071.380.070.200.39
                SEEP-SRB1d0.070.130.132.101.641.120.590.200.790.72
                SEEP-SRB1e0.260.260.390.460.260.590.390.071.180.260.260.071.710.13
                SEEP-SRB1f0.070.070.130.46
                Other0.203.750.663.681.711.710.921.051.717.964.939.544.488.033.557.37
            Other Desulfobacterales3.751.453.091.259.935.333.224.412.042.372.892.112.832.443.682.30
        SEEP-SRB20.070.070.591.453.294.805.1315.3414.4119.3415.6613.5617.7114.4115.79
        Other Deltaproteobacteria0.590.720.200.922.241.972.701.783.822.432.502.892.631.913.821.64
    Gammaproteobacteria
        Beggiatoa1.180.260.260.330.070.262.833.825.334.285.204.816.454.80
        CGS (clam gill symbiont group)1.581.781.181.781.511.310.791.780.660.130.860.460.990.331.050.46
        MHGSII (Maorithyas hadalis gill symbiont group)0.993.031.123.882.703.681.783.620.200.130.070.200.920.260.070.20
        Methylococcales0.530.202.570.204.410.263.290.200.260.530.130.07
        Other Gammaproteobacteria2.244.478.553.0912.7610.1913.0310.205.074.671.843.623.623.093.293.55
    Epsilonproteobacteria
        Campylobacterales3.622.114.804.012.500.660.660.991.180.921.120.461.910.461.710.39
        Other Epsilonproteobacteria26.4541.8421.3236.187.765.922.892.893.097.112.435.727.373.364.546.25
    Zetaproteobacteria0.130.790.070.070.070.070.070.070.130.130.07
Other Bacteria1.782.702.111.456.517.174.878.037.903.553.623.755.403.554.803.55
  • a Results are given for Bacteria, according to sample, DNA extraction method, and primer set used. Empty cells indicate that no reads were affiliated with the corresponding microbial group.