Table 1.
Enteric communities in three different microenvironments of field site 3
| Genus | Relative % of sequencesa |
|||
|---|---|---|---|---|
| Rhizo 3a | Rhizo 3b | Endo 3b | Soil 3b | |
| Buttiauxella | 1.6 | 0.0 | 0.0 | 2.6 |
| Citrobacter | 5.4 | 2.6 | 3.9 | 7.0 |
| Enterobacter | 44.8 | 44.6 | 31.9 | 15.5 |
| Erwinia | 1.5 | 0.0 | 0.0 | 4.9 |
| Escherichia | 1.4 | 0.0 | 1.1 | 1.3 |
| Klebsiella | 9.5 | 5.7 | 11.5 | 12.2 |
| Kluyvera | 1.7 | 2.1 | 3.8 | 1.4 |
| Pantoea | 14.5 | 13.2 | 14.0 | 23.5 |
| Pectobacterium | 0.0 | 0.0 | 0.0 | 5.0 |
| Raoultella | 2.4 | 3.0 | 12.3 | 2.7 |
| Salmonella | 0.0 | 0.0 | 1.1 | 1.3 |
| Serratia | 12.1 | 23.0 | 11.3 | 18.3 |
| Yersinia | 0.0 | 0.0 | 1.3 | 0.0 |
| Others | 5.1 | 5.9 | 7.7 | 4.4 |
a
The percentage of major genera was determined by pyrosequencing 16S rRNA amplicons from metagenomic DNA extracted from the rhizosphere (Rhizo 3a, no herbicide treatment, agro-forest; Rhizo 3b, no herbicide treatment), the endosphere (Endo 3b), and soil (Soil 3b). The identification of the closest strain based on the 16S rRNA sequence similarity was achieved using the online analysis tool SnoWMAn 1.8. Phylogenetic groups accounting for ≤1% of all quality sequences are summarized in the artificial group “Others.”