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Fig. 1 | Animal Microbiome

Fig. 1

From: Composition and co-occurrence patterns of the microbiota of different niches of the bovine mammary gland: potential associations with mastitis susceptibility, udder inflammation, and teat-end hyperkeratosis

Fig. 1

Comparison of diversity metrics between teat canal and milk microbiota. a Chao1 index of species richness and Shannon’s index of diversity were compared between the teat canal and milk microbiota of primiparous and multiparous cows. The OTU table was normalized to an even depth of 4000 OTU per sample prior to calculation of diversity metrics. PROC MIXED of SAS 9.3 was used for ANOVA test and the effect of cow was included as random factor in all comparisons. “*” The original values for Shannon’s indices of diversity were subjected to Box-Cox power transformation to achieve normal distribution of the data prior to ANOVA. b Principal coordinate analysis (PCoA) was used for visualization of Bray-Curtis dissimilarities of the microbial communities. The OTU table was normalized using cumulative sum scaling (CSS) transformation. PERMANOVA was used to test for distinction of clustering patterns based on different niches of mammary gland and parity. The effect of cow was included as random factor in all comparison. For all tests p-values < 0.05 were considered as significant

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Animal Microbiome

ISSN: 2524-4671