Table 1.
Summary of samples and the recovered DNA using three DNA extraction methods.
| Sample location | Sample type | Temp (°C) | Depth (mbsf) | Water depth (m) | Cell abundance (cells/g sample) | DNA extraction method | DNA recovery (μg DNA/g sample)1 | DNA recovery (μg DNA/g sample)2 | Archaeal 16S rRNA gene copies/g sample | Bacterial 16S rRNA gene copies/g sample | Archaeal to Bacterial 16S rRNA gene ratio | Unlysed cell (cells/g sample) | Lysis efficiency (%) |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Guaymas Basin (GB) | Oil-immersed hydrothermal sediment | 31 | 0.06 | ∼2000 | 1.96 ± 0.22 × 1010 | M-SDS | 75.1 ± 6.95 | 12.95 ± 0.16 | 7.2 ± 0.2 × 109 | 10.0 ± 0.1 × 108 | 7.20 | 3.6 ± 0.6 × 108 | 98.2 |
| HA | 25.1 ± 3.43 | 3.17 ± 0.14 | 1.5 ± 0.0 × 109 | 3.5 ± 0.1 × 108 | 4.26 | 2.7 ± 0.2 × 108 | 98.6 | ||||||
| KIT | 14.5 ± 3.5 | 0.25 ± 0.03 | 1.7 ± 0.2 × 106 | 9.8 ± 0.7 × 105 | 1.69 | 1.5 ± 0.3 × 109 | 92.5 | ||||||
| East Pacific Rise (EPR) | Basaltic sulfide, hydrothermal chimney | 40 | CS | 2000 | 1.69 ± 0.25 × 109 | M-SDS | 30.0 ± 1.41 | 1.21 ± 0.004 | 2.2 ± 0.3 × 107 | 7.9 ± 0.1 × 107 | 0.28 | 4.4 ± 0.02 × 107 | 97.4 |
| HA | 12.8 ± 0.33 | 0.11 ± 0.03 | 3.4 ± 1.0 × 106 | 4.7 ± 0.1 × 107 | 0.07 | 2.9 ± 0.4 × 108 | 82.9 | ||||||
| KIT | 6.0 ± 0.77 | 0.06 ± 0.004 | 3.9 ± 0.2 × 104 | 1.6 ± 0.1 × 106 | 0.03 | 2.1 ± 0.5 × 107 | 98.8 | ||||||
| South China Sea (SCS) | Calcium carbonate, clay sediment | ∼4 | 0.11 | 1600 | 1.17 ± 0.03 × 109 | M-SDS | 43.2 ± 1.1 | 0.60 ± 0.01 | 3.1 ± 0.1 × 107 | 1.6 ± 0.0 × 108 | 0.19 | 1.1 ± 0.02 × 107 | 99.0 |
| HA | 23.3 ± 0.73 | 0.12 ± 0.04 | 8.3 ± 0.3 × 106 | 6.6 ± 0.2 × 107 | 0.13 | 4.3 ± 0.8 × 107 | 96.3 | ||||||
| KIT | 8.2 ± 1.0 | NM | 8.3 ± 2.1 × 104 | 3.1 ± 0.1 × 105 | 0.26 | 5.9 ± 0.6 × 107 | 94.9 |
1DNA measured by spectrophotometry. 2DNA measured by Fluorometer method. 3DNA extracted by HA is regarded as single stranded DNA. CS, Chimney surface. NM, Not Measured duo to lack of DNA.