Table 3.
Number (percentage) of positives by the Enterococcus assays against environmental isolates and ATCC strains
| Target organism(s) | Assay | No. (%) of positives |
||||||
|---|---|---|---|---|---|---|---|---|
| Enterococcus casseliflavus (n = 50)a | Enterococcus faecalis (n = 39) | Enterococcus faecium (n = 11) | Enterococcus hirae (n = 5) | Enterococcus mundtii (n = 40) | Other enterococcal species (n = 8)b | Nonenterococcal species (n = 17)c | ||
| Enterococcus spp. | Entero1c | 50 (100) | 39 (100) | 11 (100) | 5 (100) | 40 (100) | 8 (100) | 1 (5.9) |
| Ent1 | 50 (100) | 39 (100) | 11 (100) | 5 (100) | 39 (98) | 7 (88) | 4 (24) | |
| Ent2 | 33 (66) | 19 (49) | 8 (73) | 4 (80) | 18 (45) | 8 (100) | 0 (0) | |
| Ent3 | 50 (100) | 37 (95) | 11 (100) | 4 (80) | 39 (98) | 8 (100) | 0 (0) | |
| Ent4 | 50 (100) | 39 (100) | 11 (100) | 5 (100) | 40 (100) | 8 (100) | 2 (12) | |
| Enterococcus faecalis | Faecalis1d | 5 (10) | 39 (100) | 2 (18) | 0 (0) | 6 (15) | 1 (13) | 0 (0) |
| Faecalis2 | 0 (0) | 16 (41) | 0 (0) | 0 (0) | 0 (0) | 0 (0) | 0 (0) | |
| Faecalis3 | 0 (0) | 25 (64) | 0 (0) | 0 (0) | 0 (0) | 0 (0) | 0 (0) | |
| Enterococcus casseliflavus | Casseli1d | 49 (98) | 0 (0) | 1 (9.1) | 1 (20) | 0 (0) | 0 (0) | 0 (0) |
| Casseli2 | 29 (58) | 4 (10) | 1 (9.1) | 0 (0) | 4 (10) | 0 (0) | 0 (0) | |
| Casseli3 | 48 (96) | 0 (0) | 1 (9.1) | 0 (0) | 0 (0) | 0 (0) | 0 (0) | |
| Enterococcus faecium | Faecium1d | 2 (4.0) | 0 (0) | 11 (100) | 5 (100) | 40 (100) | 8 (100) | 0 (0) |
| Faecium2 | 27 (54) | 2 (5.1) | 10 (91) | 3 (60) | 35 (88) | 8 (100) | 0 (0) | |
| Faecium3 | 30 (60) | 1 (2.6) | 11 (100) | 5 (100) | 28 (70) | 8 (100) | 0 (0) | |
| Faecium4 | 0 (0) | 0 (0) | 11 (100) | 4 (80) | 19 (48) | 7 (88) | 0 (0) | |
All enterococcal species were identified by NCBI BLAST, with the exception of E. casseliflavus, the sequences of which are nearly identical to those of E. gallinarum.
Sequences of the isolates are affiliated with the E. faecium clade (see Fig. 1).
Seven ATCC strains (Aeromonas eucrenophila, Escherichia coli, Legionella sainthelensi, Proteus vulgaris, Salmonella enterica serovar Typhimurium, Shigella flexneri, and Staphylococcus aureus), six laboratory strains (Catellicoccus marimammalium, Citrobacter freundii, Escherichia coli O157:H7, Escherichia hermannii, Klebsiella pneumoniae, and Pseudomonas aeruginosa), and four environmental strains (Aerococcus species, Lactococcus garvieae, Pediococcus pentosaceus, and Streptococcus pasteurianus).
TaqMan qPCR assays.