Fig. 3
From: Design and application of a novel two-amplicon approach for defining eukaryotic microbiota
Eukaryotic and bacterial microbiota of Malawian cohort suffering from SAM. a Relative sequence abundance of microbial eukaryotic phyla, identified by the 18S rRNA gene V4 V5 amplicon (n = 44). Columns represent individual patients. b Numbers of protozoan genera identified in patients from 18S rRNA gene V4 V5 data. c Bayesian phylogenetic trees showing relationships between sequence representatives from clinical samples and reference species. Posterior probability values indicate branch support. d Relative sequence abundance of microbial eukaryotic phyla, identified by transITS (n = 46) amplicons. e Similarity of taxonomic profiles generated by the two amplicon regions, quantified by co-occurrence of eukaryotic genera within patients compared to between patients. Shown are distributions of within-patient and between-patient normalized Hamming distances, averaged over a range of presence/absence thresholds (2–100 reads). f Bray-Curtis compositional dissimilarity of eukaryotic genera identified by the two amplicon regions within and between patients. Significance was tested using the Wilcoxon rank sum test. g Venn diagram showing the overlap of eukaryotic genera identified using the two amplicon regions. A subset of organisms of interest is indicated. h Relative sequence abundance of bacterial phyla identified in 16S rRNA gene amplicon data