Additional file 2 of The influence of vaginal microbiota on ewe fertility: a metagenomic and functional genomic approach

Supplementary material 2: Figure S1. Alpha diversity measures (Observed, Chao1, Shannon, and InvSimpson index) for Pregnancy and herd at the Genus (a) and Phylum (b) level. Figure S2. Alpha diversity measures (Observed, Chao1, Shannon, and InvSimpson index) for Pregnancy at the Genus (a) and Phylum (b) level. Figure S3. Alpha diversity measures (Observed, Chao1, Shannon, and InvSimpson index) for age category at the genus (a) and phylum (b) level. Figure S4. Alpha diversity measures (Observed, Chao1, Shannon, and InvSimpson index) for parity category at the genus (a) and phylum (b) level. Figure S5. Rarefaction curves for all analysed samples for alpha diversity analysis. Figure S6. Principal component analysis of microbiota composition by Age (a, b) and Parity (c, d) categories. Figure S7. Heatmap representing the RA of taxa against group means (on a 100-point scale) from the differential abundance analysis for pregnancy, for the global model (ALL) and within each herd. Figure S8. Prevalence of pregnancy by herd groups. Figure S9. Boxplots of taxa with significant differential abundance between pregnant and non-pregnant ewes for Histophilus, Mycoplasmopsis, Campylobacter, and Bacteroides genera. Figure S10. Boxplots of taxa with significant differential abundance between pregnant and non-pregnant ewes for Fusobacterium, Streptobacillus, Gemella, and Trueperella genera. Figure S11. Boxplots of taxa with significant differential abundance between pregnant and non-pregnant ewes for Peptoniphilus, Caviibacter, Actinomyces, and Helococcus genera. Figure S12. Boxplots of taxa with significant differential abundance between pregnant and non-pregnant ewes for Treponema, Tissierella, and Phocaeicola genera. Figure S13. Boxplots of taxa with significant differential abundance between pregnant and non-pregnant ewes for Fusobacteriota, Mycoplasmatota, Campylobacterota, and Uroviricota phyla. Figure S14. Boxplots of taxa with significant differential abundance between pregnant and non-pregnant ewes for COG0732, COG0751, COG1207, and ENOG410XNNV. Pregnancy-positive samples in blue and pregnancy-negative samples in red. Figure S15. Boxplots of taxa with significant differential abundance between pregnant and non-pregnant ewes for KO1154. Table S1. PERMANOVA results for the effects of Pregnancy, age category, and parity category on microbiota composition within each herd group at genus level. Table S2. Pairwise comparisons for Herd groups using permutation MANOVAs on a distance matrix. Table S3. Pairwise comparisons for Age category groups using permutation MANOVAs on a distance matrix. Table S4. Pairwise comparisons for Parity category groups using permutation MANOVAs on a distance matrix