Fig. 2: Rumen microbiome analyses showing two distinct groups, labeled Rumen Community Type (RCT) -A and -B.
From: Protozoal populations drive system-wide variation in the rumen microbiome
a, b Principal Coordinates Analysis of robust Aitchison distances of (a) 16S rRNA gene sequence data (n = 71), showing two optimal clusters from Dirichlet Multinomial Mixtures; b metagenomic data (n = 24). c–f Principal Component Analysis of microbiome-derived c metatranscriptomic, d metaproteomic, and e metabolomic data as well as f host-omic data, showing the first Principal Component (PC) with p < 0.1 (two-sided t-test, no multiple comparison correction) between clusters for each data type. Box hinges: 1st and 3rd quartiles, whiskers: hinge to highest and lowest values within 1.5*IQR of hinge. g Taxonomic classifications of features (transcripts or proteins) with the strongest contributions (i.e., loadings) to PC1 in digesta metatranscriptomics and metaproteomics, grouped by association with RCT-A (positive) or RCT-B (negative), showing top 100 features for each omic and RCT; “other” summarizes taxa with only one feature in the top 100. Data for this figure are available in Supplementary Data 3.
