Fig. 2

Comparison of microbiota in the rumens of dairy goats exhibiting SARA occurrence (susceptible) or healthy (SARA tolerance) status. A Comparison of ruminal microbial alpha diversity with the Shannon index among the CON, LRDSS, LRDST, HRDSS, and HRDST groups. B Comparison of ruminal microbial beta diversity among the CON, LRDSS, LRDST, HRDSS, and HRDST groups according to ANOSIM analysis based on the Bray–Curtis distance matrix. PERMANOVA was applied to analyse the microbial differences between the 2 groups. C Differential ruminal genera identified when comparisons among the CON group and SARA (LRDSS and HRDSS) groups were performed. The genera that significantly increased in both the LRDSS and HRDSS groups compared to the CON group are highlighted in red; the genera that significantly decreased in both the LRDSS and HRDSS groups compared to the CON group are highlighted in green; the genera that gradually increased in the CON LRDSS and HRDSS groups are highlighted in brown; and the genera that gradually decreased in the CON, LRDSS and HRDSS groups are highlighted in purple. The Mann–Whitney U test was carried out for the two groups. The Kruskal-Wallis test with the Tukey-Kramer post hoc test was employed for more than three groups. * indicates that the difference is significant at FDR < 0.05. D Spearman correlation between the common genus-level differences in the bacteria in dairy goats from the CON group and SARA (LRDSS and HRDSS) groups and their rumen fermentation parameters. * indicates that the difference is significant with P < 0.05, ** indicates that the difference is significant with P < 0.01