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UniFrac analysis was used to analyze the phylogenetic distances between in communities in each BAL sample, this was visualized by unweighted (Fig 2A-B) and weighted (Fig 2C-D) Principles Coordinates Analysis (PCoA, Fig 2A and C) and a dendrogram trees (Fig 2B-C). Each PCoA axis (PCo1 or PCo2) describes the percentage of variation between samples that the axis is able to explain. Common samples that cluster together are circled in red.
