TABLE 3.
Sequence-based identifications of bacterial TRFs associated with E. coli O157:H7 suppression across all three experiments
| TRFa | Highest BLAST hitb | Highest published BLAST hit with named genus or genus and species designationb | Bacterial group |
|---|---|---|---|
| M89 | Uncultured bacterium from manure, potato plant root bacterium | Cellulophaga tyrosinoxydans, Cytophaga spp. | Cytophaga-Flexibacter-Bacteroidetes |
| M96 | Uncultured compost bacterium, uncultured bacterium from beetle hindgut, uncultured bacterium from cattle feedlot, uncultured Fluviicola | Proteiniphilum acetatigenes, Fluviicola spp. | Cytophaga-Flexibacter-Bacteroidetes |
| M99 | Uncultured bacterium from cattle feedlot | Bacteroides spp. | Cytophaga-Flexibacter-Bacteroidetes |
| M118c | |||
| M142 | Uncultured bacterium from wetland soil, Cellulosimicrobium cellulans | Marinomonas spp., Cellulosimicrobium cellulans | Gammaproteobacteria, Actinomycetales |
| M156 | Uncultured bacterium from cattle feedlot, uncultured bacterium from hyena feces | Lysobacter spp., Caryophanon spp. | Gammaproteobacteria, Firmicutes |
| M202c | |||
| M299 | Uncultured bacterium from bovine feces, uncultured bacterium from cattle feedlot, Marinobacter spp., Halomonas spp. | Clostridium spp., Faecalibacterium prausnitzii, Marinobacter excellens, Halomonas venusta | Firmicutes, Gammaproteobacteria |
| M488 | Uncultured bacterium from biogas reactor | Oenothera phytoplasma | Mollicutes |
| M492 | Uncultured bacterium from wastewater | Arenimonas donghaensis | Gammaproteobacteria |
| M510 | Uncultured compost bacterium | Bordetella petrii | Betaproteobacteria |
a
TRF is from the 8F primer site to the first MspI site.
b
BLAST analysis (1) was used to compare TRF sequences to sequences in GenBank. Putative identifications are highlighted if they possess a ≥99% (boldface) or <89% (underlined) sequence identity across the cloned TRFs.
c
No clones containing the target fragment length were identified.