Fig. 5: Unadjusted analysis of differential abundance by trial arm. | Nature Communications

Fig. 5: Unadjusted analysis of differential abundance by trial arm.

From: Effects of iron supplements and iron-containing micronutrient powders on the gut microbiome in Bangladeshi infants: a randomized controlled trial

Fig. 5

Volcano plots illustrating differential abundance by trial arm as measured immediately post-intervention utilizing unadjusted p values. A Differential abundance at the genus level. B. Differential abundance at the species level. Illustrate results of unadjusted differential abundance analyses at the species level of subgroups: (C) participants with baseline iron deficiency, (D) participants with baseline iron repletion (1. Clostridium innocuum (MNPs), 2. Clostridioides difficile (MNPs), 3. C. innocuum (Iron), 4. Escherichia coli (MNPs), 5. Bifidobacterium bifidum (Iron), 6. E. coli (Iron)) (E) participants with low hepcidin (<10 ng/mL) at baseline (1. Streptococcus infantarius (Iron), 2. Lactobacillus vaginalis (Iron), 3. Clostridium paraputrificum (Iron), 4. Clostridium butyricum (Iron), 5. Enterobacter cloacae complex (Iron), 6. Clostridium sp 7 2 43FAA (Iron), 7. Lactobacillus salivarius (Iron), 8. Enterococcus avium (Iron), 9. Sutterella parvirubra (Iron), 10. Allisonella histaminiformans (Iron), 11. Collinsella intestinalis (Iron), 12. Actinomyces sp HPA0247 (Iron), 13. Bifidobacterium dentium (Iron), 14. Collinsella stercoris (Iron)) and (F) participants with non-low hepcidin (≥10 ng/mL) at baseline (1. Enterococcus faecalis (Iron), 2. Ruminococcus torques (Iron), 3. Clostridium innocuum (MNPs), 4. Enterococcus faecium (MNPs), 5. Escherichia coli (Iron), 6. Lactobacillus gasseri (MNPs)). Iron deficiency was defined as either serum ferritin <12 μg/L or <30 μg/L if C-reactive protein was (>5 mg/L). (A 16S rRNA data; B–F. Shotgun metagenomic data). For (A), a log linear regression model is performed on abundance data to determine differential abundance of genera and present unadjusted p values. For (B–F), relative abundance data underwent centered log ratio normalization/transformation in a general linear model analysis in MaAsLin2, with data for differentially abundant species including coefficient (approximating log2-fold change), standard deviation and unadjusted p value. Each figure shows log2-fold change on the x-axis and the −log10(unadjusted p value) on the y-axis. The horizontal red line indicates an unadjusted p value 0.05. Source data for this figure are provided in the Source Data file.

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