Table 1 Sampling locations, the number of cpDNA sequences, the number of sequences, Chao’s index, and two estimates of the number of Salmonella sequences for each of the 18 replicates
From: Using metagenomic analyses to estimate the consequences of enrichment bias for pathogen detection
Site | Location | Treatment | Replicate | MG-RAST ID | cpDNA Sequences | Sequences | Chao’s Index | Salmonella(Normalized) | Salmonella(Raw) |
|---|---|---|---|---|---|---|---|---|---|
Florida47 | 26 27′ 42″ N | Enriched | 1 | 4478869.3 | 0 | 10323 | 182.2 | 0 | 0 |
2 | 4478871.3 | 0 | 8576 | 777.1 | 0 | 0 | |||
3 | 4478873.3 | 3 | 9528 | 950.0 | 0 | 0 | |||
081 26′ 16″ W | Unenriched | 1 | 4478870.3 | 38 | 5852 | 493.2 | 0 | 0 | |
2 | 4478872.3 | 74 | 8965 | 414.7 | 0 | 0 | |||
3 | 4478874.3 | 28 | 12235 | 593.7 | 0 | 0 | |||
BHN836 | 26 22′ 05″ N | Enriched | 1 | 4478875.3 | 0 | 9972 | 1020.5 | 0 | 0 |
2 | 4478877.3 | 1 | 9272 | 749.9 | 0 | 0 | |||
3 | 4478879.3 | 1 | 12836 | 660.2 | 0 | 0 | |||
081 15′ 59″ W | Unenriched | 1 | 4478876.3 | 78 | 8786 | 848.4 | 0 | 0 | |
2 | 4478878.3 | 301 | 10804 | 1058.8 | 0 | 0 | |||
3 | 4478880.3 | 195 | 8751 | 816.8 | 0 | 0 | |||
Soraya | 26 17′ 12″ N | Enriched | 1 | 4478881.3 | 2 | 7850 | 589.6 | 0.50 | 28 |
2 | 4478883.3 | 0 | 7901 | 166.1 | 0.10 | 1 | |||
3 | 4478885.3 | 1 | 7358 | 156.0 | 0 | 0 | |||
081 20′ 21 W | Unenriched | 1 | 4478882.3 | 1554 | 11911 | 1186.7 | 0 | 0 | |
2 | 4478884.3 | 2556 | 10382 | 1040.3 | 0 | 0 | |||
3 | 4478886.3 | 669 | 9458 | 915.7 | 0 | 0 | |||
Total | 5501 | 170760 | 701.11* | 0.03* | 1.61* |