Table 1.
Longitudinal multi-omic microbiome datasets and studies.
| System | Sample type | Duration∗ | Frequency∗ | Total of samples | MG | MT | MP | MM | Complementary data | Studies |
|---|---|---|---|---|---|---|---|---|---|---|
| Human gut microbiome | Stool samples from 132 humans; healthy or with Crohn’s disease or ulcerative colitis | 1 year | Bi-weekly | 2,965 | x | x | x | x | Host genomics, transcriptomics bisulfite sequencing, serologic profiles, diet surveys, and fecal calprotectin | Lloyd-Price et al., 2019 |
| Ruiz-Perez et al., 2021 | ||||||||||
| Stool samples of 77 individuals | 6 months | Monthly | 474 | x | x | Host transcriptome, metabolome, cytokines, methylome, dietary survey, and physiology | Blasche et al., 2021 | |||
| Activated sludge | Floating sludge islets from a single anoxic tank | 1.5 year | Weekly | 53 | x | x | x | x | Temperature, pH, oxygen concentration, conductivity, inflow, nitrate concentration, and extracellular metabolites | Herold et al., 2020 |
| Martínez Arbas et al., 2021 | ||||||||||
| Full- and lab-scale activated sludge | 2.5 months | Weekly | 10 | x | x | Temperature, pH, redox potential and dissolved oxygen | Law et al., 2016 |
Longitudinal multi-omic data must be of least six timepoints and at least two meta-omic readouts excluding 16S amplicon sequencing. Omics data derived from host(s) are considered separate from the microbial meta-omic spectra.
∗
Approximate values.