Table 3.
Closest relatives of the DGGE bands of bacterial SSU rRNA genes derived from rice roots, the bands of which were additionally detected using LNA oligonucleotides
| DGGE band | Closest relatives | Accession number | Similarity | Seq (bp) | Alignment |
|---|---|---|---|---|---|
| 1 | Uncultured Sphingobacteria bacterium clone GASP-WC2W1 | EF075155 | 99% | 449 | 447/449 |
| Terrimonas lutea DY | NR_041250 | 96% | 449 | 434/453 | |
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| 2 | Uncultured Bacteroidetes bacterium clone SNNP_2012-140 | JX114473 | 92% | 546 | 500/546 |
| Bacteroidetes bacterium THS | AB539999 | 83% | 546 | 460/552 | |
|
| |||||
| 3 | Uncultured bacterium clone Amb_16S_723 | EF018351 | 99% | 483 | 480/483 |
| Solibacter usitatus Ellin6076 | CP000473 | 95% | 483 | 460/484 | |
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| 4 | Uncultured bacterium clone 0693 | JN855457 | 95% | 540 | 512/538 |
| Chryseolinea serpens RYG | FR774778 | 92% | 540 | 498/540 | |
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| 5 | Uncultured bacterium clone 1142 | JN855318 | 99% | 540 | 537/538 |
| Chryseolinea serpens RYG | FR774778 | 93% | 540 | 503/541 | |
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| 6 | Uncultured bacterium clone OTU98 | JN222519 | 88% | 549 | 487/551 |
| Desulfuromonas sp. TZ1 | JX258673 | 84% | 549 | 468/555 | |
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| 7 | Uncultured bacterium clone BSS126 | HQ397574 | 95% | 544 | 518/545 |
| Bacillus megaterium S9 | JQ410775 | 93% | 544 | 504/543 | |
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| 8 | Uncultured Acidobacteria bacterium clone GASP-WC2W1_D09 | EF075181 | 98% | 531 | 522/531 |
| Telmatobacter sp. 15-28 | KC954751 | 83% | 531 | 445/537 | |