Table 1.
Experimental setup and qPCR results of the spiking DNA extraction experiments on human fecal samplesa
| Nematode species | Extraction conditions |
Mean CT value (SD) for samples spiked with: |
No. of positive PCRs out of 6 possible for samples spiked with: |
|||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Mixing method | Beadsb | 0 eggs | 1 egg | 3 eggs | 5 eggs | 20 eggs | 0 eggs | 1 egg | 3 eggs | 5 eggs | 20 eggs | |
| A. suum | Vortexing | None | — | — | 39.82 | 38.85 (1.85) | 38.04 (3.03) | — | — | 1 | 4 | 4 |
| Vortexing | Zirconium | NA | — | 40.69 (0.94) | 39.91 (0.55) | 39.53 (1.69) | NA | — | 2 | 3 | 6 | |
| Vortexing | Garnet | NA | — | 36.81 (1.53) | 41.32 (1.13) | 40.74 (0.87) | NA | — | 6 | 3 | 4 | |
| BB | Zirconium | NA | 40.40 (1.08) | 37.78 (2.21) | 37.75 (1.30) | 39.05 (0.86) | NA | 6 | 6 | 6 | 6 | |
| BB | Garnet | NA | 41.18 | 39.70 (0.61) | 38.24 (1.76) | 39.97 (1.51) | NA | 1 | 4 | 3 | 3 | |
| T. trichiura | Vortexing | None | — | — | 41.16 | 40.36 | 39.58 (0.02) | — | — | 1 | 1 | 2 |
| BB | Zirconium | — | — | — | 39.26 (1.63) | 37.64 (0.56) | — | — | — | 4 | 2 | |
a
Artificial spiking of nematode-negative, Dientamoeba fragilis-positive samples with eggs of A. suum and T. trichiura. Samples are in triplicate and were analyzed in duplicate reactions; mean CT values are shown. NA, not applicable; BB, bead beating; —, sample negative by qPCR.
b
Glass beads were not included in the table (see the text for details).