Fig. 6
From: Bacterial topography of the upper and lower respiratory tract in pigs
Comparison of nostril and tracheal samples based on the MAG count table. A Relative abundance of the top 10 abundant MAGs. B Shannon and C Chao1 diversity indexes. Groups were compared with the Wilcoxon Rank Sum test. D Two-dimensional non-metric multidimensional scaling (nMDS) plot based on the Bray–Curtis dissimilarity matrix of nasal and tracheal samples. Sample clustering of the two respiratory tract was significantly different (PERMANOVA, p = 0.006). E Differential abundance analysis between nasal and tracheal samples based on DESeq2. Only MAGs with q-values (adjusted p-values) < 0.01, estimated fold change > 3 or < -3, and estimated base mean > 60 were considered significantly differentially abundant and included in the plot