FIGURE 3 from Integrative Metatranscriptomic Analysis Reveals Disease-specific Microbiome–host Interactions in Oral Squamous Cell Carcinoma
Microbial loads and transcriptional profiles. DNA extracted from the same cells as for RNA was used to determine bacterial, fungal, and archaeal loads in the samples relative to human β-actin gene by qPCR (A). Nonhuman, nonribosomal RNA sequences were used as input for HUMAnN 3.0 for microbial taxonomic and functional profiling. Microbial phyla (B) and top 20 genera (C) identified in each of the study groups ranked by their average transcriptional relative abundances. D, A PCA plot based on CLR-transformed genus-level profiles (created with Phyoseq and microbiome R packages). E, Top 20 expressed enzyme classes ranked by their average transcriptional abundances (CLR-transformed counts) in each sample type.