Latent Dirichlet Allocation modeling of environmental microbiomes
Table 4
Most probable and amplified taxa in some topics associated with experimental conditions at phylum, class, and order taxonomic levels.
Left: average percentages of most abundant taxa in pots for each taxonomic level. Middle: topic association with experimental conditions (HW: half-water, FW: full-water, G0: generation 0, G1: generation 1, AG: agricultural soil source). Right: most probable taxa in topic with probabilities are displayed in each upper row; most amplified taxa with its value (see Methods) are displayed in each lower row, some taxa were unidentified at lower levels. Note that unidentified taxa were aggregated to the highest known taxonomic level, meaning that they may represent one or several classes, orders, etc. Not all topics are listed.