TABLE 3.
Tentative identification of dominant DGGE bands by sequencing the excised bands and BLAST analysisa
| Band name | Sequence size (bp) | Accession no. | Closest relative (accession no.) | Alignment, % similarity | Score | Taxonomic affiliation |
|---|---|---|---|---|---|---|
| Ca | 314 | AY391554 | Sinorhizobium sp. and Agrobacterium sp. (e.g., AJ300187 and L39882) | 313/314, 99 | 615 | α-Proteobacteria |
| Ma | 300 | AY391555 | Uncultured soil bacterium (AF507686) | 290/292, 99 | 563 | Unknown |
| Mb | 301 | AY391556 | Uncultured soil bacterium (AF507686) | 289/292, 98 | 555 | Unknown |
| Mc | 317 | AY391557 | Uncultured soil bacterium (AF507740) | 312/317, 98 | 589 | Unknown |
| Md | 315 | AY391558 | Uncultured acidobacterium (AY177759) | 310/315, 98 | 585 | Acidobacteria |
| Me | 302 | AY391559 | Uncultured soil bacterium (e.g., AF423305 and AF423295) | 294/294, 100 | 583 | Unknown |
| NPKa | 313 | AY391560 | Uncultured bacterium (AB075101) | 306/313, 97 | 565 | Unknown |
| NPKb | 301 | AY391561 | Uncultured bacterium (AJ318200) | 282/292, 96 | 500 | Unknown |
| NPKc | 314 | AY391562 | Uncultured soil bacterium (AY326617) | 304/314, 96 | 543 | Unknown |
| NPKd | 309 | AY391563 | Massilia timonae (e.g., U54470 and AY157761) | 306/309, 99 | 589 | β-Proteobacteria |
| NPKe | 309 | AY391564 | β-Proteobacterium (AY278883) | 306/309, 99 | 589 | β-Proteobacteria |
a
Sequences were aligned with the closest relatives (highest score) in the GenBank database with BLAST. Bands correspond to those excised from the DGGE gel (Fig. 1). The percentage of similarity was calculated without taking gaps into account. The part of the total sequence used for alignment is indicated by the alignment data. Nucleotide sequences can be accessed by using the accession numbers at http://www.ncbi.nlm.nih.gov.