TABLE 2.
Environmental limits of detection for general Bacteroidales and swine-associated PCR assays for DNA extracted from fecal and water samples
| Sample type | Detection limit (g of DNA extract)
|
|||
|---|---|---|---|---|
| General Bacteroidales (Bac32) | Swine-associated Prevotella (PF163) | Swine-associated methanogens (P23-2) | Swine-associated Prevotella (PigBac1) | |
| Pig fecal (8 wk)a | 1 × 10−15 | 1 × 10−15b | 1 × 10−8 | 1 × 10−12c |
| Pig fecal (6 mo) | 1 × 10−15 | 1 × 10−13 | 1 × 10−8 | 1 × 10−12 |
| Pig fecal (3 to 5 yr) | 1 × 10−15b | 1 × 10−12 | 1 × 10−8 | 1 × 10−12 |
| Lagoon (site A) | 1 × 10−12 | 1 × 10−9 | 5 × 10−7d | >1 × 10−8e |
| Lagoon (site C) | 1 × 10−14 | 1 × 10−9 | 1 × 10−8 | >1 × 10−8e |
| Manure pit (site E) | 1 × 10−12 | 1 × 10−8 | >1 × 10−7d | >1 × 10−8e |
| Water (site A9) | 1 × 10−10 | 1 × 10−9 | >1 × 10−7d | >1 × 10−8e |
| Water (site C, south stream) | 1 × 10−9 | 1 × 10−9 | 1 × 10−7 | >1 × 10−8e |
| Water (site E8) | 1 × 10−14 | 1 × 10−8 | >1 × 10−7d | >1 × 10−8e |
| Water (site C2) | 1 × 10−12 | 1 × 10−8 | 5 × 10−7 | >1 × 10−8e |
| Water (Lake Granbury, site 18015) | 1 × 10−10 | 1 × 10−9 | >1 × 10−7d | 1 × 10−9 |
| Water (Buck Creek, site 10A) | 1 × 10−11 | 1 × 10−9 | >1 × 10−7d | >1 × 10−8e |
a
For pig fecal DNA detection limits, four fecal samples from each age class (i.e., 8 weeks, 6 months, and 3 to 5 years) were pooled.
b
Detection limit for the duplicate sample was 1 × 10−14 grams of DNA.
c
Detection limit for the duplicate sample was 1 × 10−13 grams of DNA.
d
Detection limit was more than 1 × 10−7 grams of DNA extract.
e
Detection limit was more than 1 × 10−8 grams of DNA extract.