Fig. 2: Microbial community diversity and composition from 16S rRNA gene amplicon data.
From: Microbial drivers of methane emissions from unrestored industrial salt ponds
a Alpha diversity as measured by Shannon index. b Phylum-level community composition (or class for Proteobacteria): counts per million (CPM) following normalization using DESeq2’s variance stabilization transformation to account for differences in read depth among samples. c PCoA based on the dissimilarity matrix calculated using weighted UniFrac. PERMANOVA confirmed the marked differences among the three types of sites (R2 = 0.623, P < 0.001). d Abundance of microbial guilds based on 16S rRNA gene taxonomy and shown as CPM following normalization using DESeq2’s variance stabilization transformation to account for differences in read depth among samples. Guilds are: iron-reducing and oxidizing bacteria (FeRB and FeOB respectively); sulfate-reducing bacteria, syntrophs, and sulfur-oxidizing bacteria (SRB, SRB_syn, and SOxB); anammox bacteria (Anamx); nitrite and ammonia-oxidizing bacteria/archaea (NOB, AOB, and AOA); methanol-oxidizing bacteria /non-methanotrophic methylotrophs (MeOB); Type I, II, and IIa methanotrophic bacteria (MOB_I, MOB_II, and MOB_IIa); and methanogens (CH4). Different letters delineate significant pairwise comparisons (Nemenyi posthoc, P < 0.05).
