Table 3.
Taxonomic composition of bacterial phyla revealed by assembled transcriptomic data (this study) and 16S rDNA V6 amplicon data obtained from the same sample.
| Domain | Phylum | Trans-ABySS | Trinity | Oases | IDBA-tran | Rockhopper | 16S rDNA V6 ampliconsa |
|---|---|---|---|---|---|---|---|
| (weighted) | (weighted) | (weighted) | (weighted) | (weighted) | |||
| Bacteria | Acidobacteria | 0.04% | <0.01% | 0.16% | 0.03% | <0.01% | 1.54% |
| Bacteria | Actinobacteria | 0.06% | 0.04% | 0.11% | 0.03% | <0.01% | 2.23% |
| Bacteria | Armatimonadetes | <0.01% | <0.01% | 0.01% | <0.01% | <0.01% | ND |
| Bacteria | Bacteroidetes | 0.13% | 0.12% | 0.39% | 0.11% | 0.04% | 3.34% |
| Bacteria | Candidate divisions and unknown | 4.85% | 8.79% | 12.23% | 4.31% | 13.01% | 8.42% |
| Bacteria | Caldiserica | ND | ND | ND | ND | ND | 0.04% |
| Bacteria | Chlamydiae | 0.16% | 0.10% | 0.37% | 0.06% | <0.01% | 1.57% |
| Bacteria | Chlorobi | 0.37% | 0.25% | 0.56% | 0.27% | 0.46% | 1.55% |
| Bacteria | Chloroflexi | 3.89% | 6.56% | 4.28% | 4.10% | 2.45% | 5.32% |
| Bacteria | Cyanobacteria | 0.05% | 0.01% | 0.71% | 0.03% | <0.01% | 0.69% |
| Bacteria | Deferribacteres | 0.01% | <0.01% | 0.03% | <0.01% | <0.01% | 0.86% |
| Bacteria | Deinococcus | ND | ND | ND | ND | ND | 0.49% |
| Bacteria | Dictyoglomi | <0.01% | <0.01% | <0.01% | <0.01% | <0.01% | ND |
| Bacteria | Elusimicrobia | 0.01% | 0.03% | 0.09% | 0.01% | <0.01% | 0.05% |
| Bacteria | Fibrobacteria | ND | ND | ND | ND | ND | 0.08% |
| Bacteria | Firmicutes | 2.38% | 2.95% | 5.24% | 1.57% | 5.83% | 8.00% |
| Bacteria | Fusobacteria | 0.01% | 0.00% | <0.01% | <0.01% | <0.01% | 0.02% |
| Bacteria | Gemmatimonadetes | 0.02% | 0.00% | 0.05% | 0.01% | <0.01% | 0.40% |
| Bacteria | Lentisphaerae | 0.28% | 0.48% | 0.25% | 0.04% | 0.32% | 0.53% |
| Bacteria | Nitrospirae | 0.34% | 0.22% | 1.07% | 0.30% | <0.01% | 3.17% |
| Bacteria | Planctomycetes | 0.17% | 0.27% | 0.68% | 0.10% | 0.15% | 0.95% |
| Bacteria | Proteobacteria | 86.96% | 80.01% | 72.79% | 88.92% | 77.69% | 59.38% |
| Bacteria | Spirochaetae | 0.17% | 0.07% | 0.50% | 0.07% | <0.01% | 0.59% |
| Bacteria | Synergistetes | 0.02% | 0.02% | 0.11% | <0.01% | 0.03% | 0.04% |
| Bacteria | Tenericutes | 0.03% | 0.01% | 0.15% | 0.01% | <0.01% | 0.27% |
| Bacteria | Thermotogae | 0.02% | 0.05% | 0.17% | 0.02% | 0.02% | ND |
| Bacteria | Verrucomicrobia | 0.02% | 0.01% | 0.08% | <0.01% | <0.01% | 0.45% |
a
Data from Magnabosco et al. (2014). See full citation in the article. Candidate divisions include BRC1, OD1, OP1, OP10, OP11, OP3, OP8, OP9, TA06, TG-1, TM6, TM7, WS3, and WS6.
ND, not detected.