Table 2.
Second-generation sequencing study designs for water and wastewater monitoring projects.
| Project design and community profiling | Sequencing platform and technique | No. of samples | Type and no. of replicates | Paired-end read length (bp) | Depth (reads per sample) |
|---|---|---|---|---|---|
| Longitudinal community analysis of bog lakes sampled weekly over 1–5 years. 91 | HiSeq, 16S rDNA | 1387 | Biological, 547 Technical, 2 |
2 × 150 | 5 × 104 |
| Microbial source tracking of fecal bacteria inputs into the Lake Superior watershed. 3 | HiSeq/MiSeq, 16S rDNA | 319 | Technical, 3 | 2 × 150 | 1.9 × 105 |
| Longitudinal community analysis of anaerobic digesters over 14 days mixed with differing salt concentrations. 69 | MiSeq, 16S rDNA | 15 | Biological, 3 | 2 × 250 | 4.5 × 104 |
| Core microbiome community analysis of activated sludge systems for longitudinal characterization. 92 | HiSeq, 16S rDNA | 39 | Biological, 13 | 2 × 150 | 4.0 × 104 |
| Metagenomic characterization of nitrogen-contaminated groundwater. 93 | HiSeq, WMS | 5 | 0 | 2 × 100 | 5 × 107 |
| WMS of shore-water and sand-water samples. 94 | HiSeq, WMS | 32 | Biological, 16 | 2×100 | 9.4 × 106 |
| Taxonomic and functional analysis of anaerobic digesters processing sludge and manure. 95 | HiSeq, WMS | 14 | Biological, 6 | 2 × 100 | 2.8 × 107 |
| Temporal study of cellulose-degrading lab-scale anaerobic digesters over 1 year. Assembled complete genomes. 23 | HiSeq, WMS | 6 | Biological, 3 | 2 × 150 | 1 × 108 |
WMS: whole-metagenome sequencing.