TABLE 1.
The multisite human microbiome datasets utilized for testing the MSN (multisite neutral) and NNH (niche‐neutral hybrid) models
| Datasets | N a | S b | Sample description | Source |
|---|---|---|---|---|
| HMP (oral) | 146 | 9 | A cohort of 242 healthy adults were sampled at 15 (male) or 18 (female) body sites up to three times, 5,177 samples were collected and sequenced, 3.5 Tera‐bases of metagenomic sequence reads were obtained, and 16S rRNA‐based OTU tables were computed. | The HMP Consortium (2012) |
| HMP (skin) | 159 | 4 | ||
| HMP (vaginal) | 72 | 3 | ||
| HMP (total) | 172 | 18 | ||
| Gut | 11 | 7 | 77 biopsy tissue samples taken from terminal ileum, ileocecal valve, ascending colon, transverse colon, descending colon, sigmoid colon, and rectum of 11 healthy adults and 16S rRNA‐based OTU tables were obtained from 454 pyrosequencing. | Zhang et al. (2014) |
| Lung | 139 | 4 | A longitudinal 16S rRNA survey of the lung microbiome collected from 139 subjects with COPD (chronic obstructive pulmonary disease) at four stages defined as stable state, exacerbation, 2 weeks post‐therapy, and 6‐week recovery. | Wang et al. (2016) |
| Total or range | 699 | 3–18 |
a
N = the number of individual subjects (metacommunities) sampled and DNA‐sequenced.
a
b
S = the number of microbiome sites (local communities) sampled from each individual subject.
b