TABLE 3.
rDNA contig assembly results.
| Complete taxonomy | Assignment | Copy number | 16S identity | 23S identity | 5S identity | Origin |
| Bacteria; Epsilonproteobacteria; Campylobacterales; Helicobacteraceae; Sulfuricurvum kujiense | Sulfuricurvum kujiense | 3 | 99% | 97% | 99% | N |
| Bacteria; Firmicutes; Clostridia; Clostridiales; Eubacteriaceae; Acetobacterium woodii | Acetobacterium woodii | 5 | n.d. | 96% | 99% | N |
| Bacteria; Deltaproteobacteria; Desulfuromonadales; Desulfuromonadaceae; Geobacter Bacteria; Deltaproteobacteria; Desulfuromonadales; Desulfuromonadaceae; Pelobacter |
Geobacter/Pelobacter sp. | 4 | 98% | 96% | 99% | N |
| Bacteria; Epsilonproteobacteria; Campylobacterales; Campylobacteraceae; Sulfurospirillum | Sulfurospirillum sp. | 2 | 98% | 98% | 94% | N |
| Bacteria; Epsilonproteobacteria; Campylobacterales; Campylobacteraceae; Sulfurospirillum | Sulfurospirillum sp. TAX2 | 2 | n.d. | 97% | 95% | N |
| Bacteria; unclassified Bacteria; Bacteria candidate phyla; Candidatus Saccharibacteria | Unclassified Saccharibacteria | 1 | 99% (94%) | 91% | 96% | N |
| Bacteria; Caldiserica; Caldisericia; Caldisericales; Caldisericaceae; Caldisericum | Caldisericum sp. | 1 | 96% (83%) | <78% | No hit | N |
| Bacteria; Bacteroidetes; Bacteroidia; Bacteroidales; Prolixibacteraceae | Unclassified Prolixibacteraceae | 2 | 98% (89%) | 85% | 94% | N |
| Bacteria; Bacteroidetes; Bacteroidia; Bacteroidales; Porphyromonadaceae; Microbacter | Microbacter sp. | 3 | 97% (95%) | 88% | 92% | N |
| Bacteria; Bacteroidetes; Bacteroidia; Bacteroidales; Paludibacteraceae; Paludibacter | Paludibacter sp. | 3 | 99% (96%) | 88% | 98% | N |
| Bacteria; Firmicutes; Clostridia; Clostridiales; Peptococcaceae; Desulfosporosinus | Desulfosporosinus sp. | 11 | 97% +5 var. |
91% +2 var. |
93% | N |
| Bacteria; Spirochaetes; Spirochaetia; Spirochaetales; Spirochaetaceae | Unclassified Spirochaetaceae | 2 | 96% | 83% | 85% | N |
| Bacteria; Firmicutes; Erysipelotrichia; Erysipelotrichales; Erysipelotrichaceae; Erysipelothrix | Erysipelothrix sp. | 5 | 99% (91%) | 89% | 88% | N |
| Bacteria; Firmicutes; Negativicutes; Selenomonadales; Sporomusaceae; Pelosinus sp. | Pelosinus sp. TAX1 | 12 | 95% | 88% | 85% | N |
| Bacteria; Firmicutes; Negativicutes; Selenomonadales; Sporomusaceae; Pelosinus sp. | Pelosinus sp. TAX2 | 12 | 98% | 95% | 93% | N |
| Bacteria; Betaproteobacteria; Burkholderiales; Comamonadaceae; Hydrogenophaga | Hydrogenophaga sp. | 1 | 99% | 99% | 97% | E |
| Bacteria; Actinobacteria; Micrococcales; Microbacteriaceae; Microbacterium | Microbacterium sp. | 2 | 100% | 100% | 100% | E |
| Bacteria; Alphaproteobacteria; Sphingomonadales; Sphingomonadaceae; Sphingopyxis bauzanensis | Sphingopyxis bauzanensis | 1 | 99% | n.d. | n.d. | E |
| Bacteria; Alphaproteobacteria; Sphingomonadales; Sphingomonadaceae; Sphingopyxis fribergensis | Sphingopyxis fribergensis | 1 | 99% | 99% | 100% | E |
| Bacteria; Alphaproteobacteria; Sphingomonadales; Sphingomonadaceae; Sphingomonas | Sphingomonas sp. | 2 | 98% | 94% | 96% | E |
| Bacteria; Alphaproteobacteria; Sphingomonadales; Sphingomonadaceae | Unclassified Sphingomonadaceae | 2 | 98%* | n.d. | n.d. | E |
| Bacteria; Actinobacteria; Micrococcales; Cellulomonadaceae; Cellulomonas | Cellulomonas sp. | 2 | 98% | 96% | 97% | E |
| Bacteria; Alphaproteobacteria; Rhizobiales; Phyllobacteriaceae; Aminobacter | Aminobacter sp. | 3 | 100% | 100% | 100% | E |
| Bacteria; Bacteroidetes; Bacteroidia; Sphingobacteriales; Sphingobacteriaceae; Pedobacter | Pedobacter sp. | 1 | 99% | 92% | 99% | E |
| Bacteria; Alphaproteobacteria; Rhizobiales; Bradyrhizobiaceae; Bosea | Bosea sp. | 2 | 99% | 98% | 100% | E |
| Bacteria; Alphaproteobacteria; Rhizobiales; Bradyrhizobiaceae; Afipia | Afipia sp. | 1 | 96% | 98% | 100% | E |
| Bacteria; Alphaproteobacteria; Caulobacterales; Caulobacteraceae; Brevundimonas | Brevundimonas sp. | 2 | 100% | 96% | 98% | E |
| Bacteria; Deltaproteobacteria; Desulfuromonadales; Desulfuromonadaceae; Geobacter | Geobacter sp. | 2 | 95–97% | 94%* | n.d. | E |
| Bacteria; Firmicutes; Bacilli; Bacillales; Staphylococcaceae; Staphylococcus pasteuri | Staphylococcus pasteuri | 5 | 100% | 99% | 100% | C |
Assignment and taxonomy are based on SILVA and/or NCBI’s NT. Origin: N, natural sample A3/Bmix; E, Emix; C, contamination. Unless stated otherwise, the contigs fully cover the ribosomal gene. *Gene fragment, (xx%) best hit on a genome, when very different, n.d.: not detected. The number of copies of each operon was estimated from the closest relatives at rrndb.umms.med.umich.edu.