Extended Data Fig. 2: Taxonomic composition and relation to culture positivity, related to Fig. 3.

(a) Taxonomic composition of culture-positive samples by ITS (top ribbon) and species cultured from the respective samples (bottom ribbon). (b) Comparison of fungal similarity (1 − Chao–Jaccard index) according to presence of fungal domination status of the earliest sample. Each dot represents a sample pair of an individual patient collected one day apart (n = 516 sample pairs). (c) Comparison of fungal similarity (1 − Chao–Jaccard index) according to the taxa responsible for fungal domination in the earliest samples. Each dot represents a sample pair of an individual patient collected one day apart (n = 88 sample pairs). (b–c) Two-sided p-values issued from generalized estimating equations with patient ID as cluster variable without accounting for multiple comparisons are shown. The upper whisker represents the maximum value or the 75th percentile value plus 1.5 times the IQR, whichever is larger. The lower whisker represents the minimum value or the 25th percentile value minus 1.5 times the IQR.