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. 2024 Oct 17;15:8979. doi: 10.1038/s41467-024-53454-4

Fig. 3. Phage diversity in active ulcerative colitis as compared to healthy individuals.

Fig. 3

FOCUS vOTUs that were classified as a virus (n = 2737) were included in the analysis. A Alpha diversity metrics (Margalef’s richness and Shannon’s diversity index) between donors (n = 14) and patients (n = 53). Differences in richness were tested using a two-sided Welch’s t-test (p = 0.0003) following assessment of normal distribution with Shapiro–Wilk test (Donors: p = 0.9537, Patients: p = 0.5537) and variances with F test (p = 0.0318). Differences in Shannon’s diversity were tested using a two-sided unpaired t-test (p = 0.4256) following assessment of normal distribution with Shapiro-Wilk test (Donors: p = 0.6160, Patients: p = 0.061) and variances with F test (p > 0.05). Errors are ± SEM. B Principal coordinate analysis (PCO) on Aitchinson distances between individual donors (green) and patient with active disease (purple). Differences between groups were tested using PERMANOVA and PERMDISP. C vOTUs that were identified to be significantly differentially abundant (q < 0.05) between donors and patients using ZicoSeq. Log2 fold-change (FC) was calculated manually for vOTUs enriched in donors (green) and patients (purple). Source data are provided as a Source Data file.