TABLE 3.
Relative abundances of bacterial targetsa
| Group | Species | Relative abundance (%) of bacteria of indicated species in samplee:
|
||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| H1 | H2 | H3 | P1 | P2 | P3 | C1 | C2 | C3 | Municipal WW | Pig WW | ||
| Bfrg602-related | B. fragilis | NDd | 3.1 ± 0.1 | 2.9 ± 0.2 | ND | ND | ND | ND | ND | ND | 3.6 ± 0.3 | ND |
| group | B. caccae | 8.9 ± 1.5 | 1.3 ± 0.8 | 1.6 ± 0.2 | ND | ND | ND | ND | ND | ND | 2.7 ± 0.4 | ND |
| B. acidifaciens | ND | ND | ND | ND | ND | ND | ND | ND | ND | ND | ND | |
| B. intestinalis | ND | ND | 1.2 ± 0.3 | ND | ND | ND | ND | ND | ND | ND | ND | |
| B. uniformis | 7.5 ± 0.5 | 3.9 ± 0.4 | 7.1 ± 0.3 | ND | ND | ND | ND | ND | ND | 18.3 ± 0.7 | ND | |
| B. eggerthii | ND | 0.6 ± 0.1 | ND | ND | ND | ND | ND | ND | ND | ND | ND | |
| B. helcogenes | ND | ND | ND | ND | ND | ND | ND | ND | ND | ND | ND | |
| B. vulgatus | 28.4 ± 0.9 | 14.8 ± 0.3 | 49.8 ± 2.2 | ND | ND | ND | ND | ND | ND | 31.5 ± 1.2 | ND | |
| B. massiliensis | ND | 2.9 ± 1.0 | ND | ND | ND | ND | ND | ND | ND | 5.2 ± 0.2 | ND | |
| B. coprocola | ND | ND | ND | ND | ND | ND | ND | ND | ND | ND | ND | |
| Bth274 [T]- | B. nordii | ND | ND | ND | ND | ND | ND | ND | ND | ND | ND | ND |
| related | B. salyersiae | ND | ND | ND | ND | ND | ND | ND | ND | ND | ND | ND |
| group | B. pyogenes | ND | ND | ND | ND | ND | ND | ND | ND | ND | ND | ND |
| B. thetaiotaomicron | 72.2 ± 0.3 | 58.9 ± 0.7 | 97.5 ± 0.4 | ND | ND | ND | ND | ND | ND | 95.2 ± 2.0 | ND | |
| U1390-related domain | Bac303-related species | 28.1 ± 0.3 | 44.4 ± 2.0 | 29.9 ± 3.0 | 5.2 ± 0.4 | 4.6 ± 0.9 | 5.1 ± 0.7 | 2.3 ± 0.3 | 2.9 ± 0.2 | 1.8 ± 0.2 | 10.4 ± 1.6 | 4.6 ± 0.6 |
| Bfrg602-related species | 5.0 ± 0.9 | 11.8 ± 1.0 | 12.1 ± 1.2 | ND | ND | ND | ND | ND | ND | 6.2 ± 0.2 | ND | |
| Bdts_gp980-related species | 2.4 ± 0.1 | 2.5 ± 0.2 | 4.1 ± 0.2 | 1.3 ± 0.1 | 1.4 ± 0.1 | 1.7 ± 0.1 | 0.7 ± 0.2 | 0.7 ± 0.2 | 0.5 ± 0.1 | 5.1 ± 0.2 | 1.8 ± 0.1 | |
| Bth274 [C]-related speciesb | 0.8 ± 0.1 | 1.2 ± 0.2 | 1.3 ± 0.2 | ND | ND | ND | ND | ND | ND | 1.5 ± 0.8 | ND | |
| Bth274 [T]-related speciesc | 1.1 ± 0.3 | 0.5 ± 0.1 | 0.2 ± 0.1 | ND | ND | ND | ND | ND | ND | 0.3 ± 0.2 | ND | |
Relative abundances of bacterial targets in the human (H1 to H3), pig (P1 to P3), and cow (C1 to C3) feces, together with those present in the influents of municipal and swine wastewater treatment plants (municipal WW and pig WW, respectively), were determined individually by using a multiplex HOPE method. CFs obtained for primers Bth274 [T]_15dA, Bnd136, Bsls1016_10dA, Pg_dtc732_20dA, and Bth584_16dA in multiplex tube 1 were as follows: 1:2.05:0.39:0.36:0.19. CFs were obtained using clones from bacterial strains that included B. nordii, B. salyersiae, B. pyogenes, and B. thetaiotaomicron strains. CFs obtained for primers Bfrg602_19dA, Bfrg1026_20dA, Bcc1066_15dA, Badf1009, Bitt141, Bufm1018_20dA, Begt999, Bhcg171_8dA, Bvg1016, Bmsl1000_19dA, and Bcpc1015_24dA in multiplex tubes 2 to 5 were as follows: 1:0.17:2.96:0.36:16.51:4.61:8.17:13.86:8.37:3.13:3.06. CFs were obtained using clones from bacterial strains that included B. fragilis, B. caccae, B. acidifaciens, B. intestinalis, B. uniformis, B. eggerthii, B. helcogenes, B. vulgatus, B. massiliensis, and B. coprocola strains. CFs obtained for primers U1390_17dA, Bac303_5dA, Bfrg602_19dA, Bdts_gp980_12dA, Bth274 [C]_15dA, and Bth274 [T]_15dA in multiplex tube 6 were as follows: 1:1.206:0.091:1.998:0.158:0.432. CFs were obtained using clones from bacterial strains that included B. fragilis, B. thetaiotaomicron, B. tectus, B. uniformis, B. nordii, P. distasonis, and P. merdae strains.
Primer Bth274 [C]_15dA extends with ddCTP when annealed to bacterial targets in this group.
Primer Bth274 [T]_15dA extends with ddTTP when annealed to bacterial targets in this group.
ND, not detected.
The relative abundances of all bacterial targets were averaged from triplicate measurements and are expressed as means ± standard deviations (n = 3).