Table 2. Spearman’s rank correlation between the relative abundance of genera of non-invasive samples (dust, excreta and litter) and invasive samples (ileal and caecal contents).
| Genera | Spearman’s rank correlation | |||||
|---|---|---|---|---|---|---|
| Caecal contents and litter | Caecal contents and dust | Ileal contents and dust | Ileal contents and litter | Caecal contents and excreta | Ileal contents and excreta | |
| Acinetobacter | -0.80 | -0.88 | -0.85 | -0.75 | -0.12 | 0.25 |
| Adlercreutzia | 0.84 | 0.74 | -0.83 | -0.38 | 0.71 | -0.31 |
| Aerococcus | -0.84 | -0.84 | -0.68 | -0.75 | -0.28 | 0.28 |
| Arthrobacter | -0.80 | -0.88 | -0.88 | -0.8 | -0.12 | -0.12 |
| Bacillus | -0.79 | -0.67 | -0.57 | -0.76 | 0.05 | 0.37 |
| Blautia | 0.83 | 0.8 | -0.85 | -0.38 | 0.81 | -0.18 |
| Brachybacterium | -0.83 | -0.8 | -0.57 | -0.76 | -0.20 | 0.26 |
| Brevibacterium | -0.84 | -0.85 | -0.63 | -0.77 | -0.25 | 0.27 |
| Burkholderia | -0.12 | -0.19 | -0.05 | 0.06 | NA | 0.2 |
| Clostridium | 0.83 | 0.68 | -0.77 | -0.52 | 0.55 | -0.48 |
| Coprobacillus | 0.8 | 0.4 | -0.86 | -0.39 | 0.78 | -0.25 |
| Coprococcus | 0.83 | 0.81 | -0.85 | -0.37 | 0.73 | -0.17 |
| Corynebacterium | -0.83 | -0.77 | -0.42 | -0.63 | -0.18 | 0.36 |
| Curtobacterium | -0.55 | -0.79 | -0.68 | -0.33 | NA | 0.47 |
| Dermacoccus | -0.78 | -0.52 | -0.37 | -0.71 | -0.22 | 0.11 |
| Eggerthella | 0.92 | 0.84 | -0.64 | -0.2 | 0.76 | -0.35 |
| Enterococcus | -0.83 | -0.85 | -0.75 | -0.77 | -0.57 | -0.24 |
| Epulopiscium | -0.24 | -0.52 | -0.52 | -0.24 | -0.22 | -0.22 |
| Eubacterium | 0.83 | 0.72 | -0.85 | -0.47 | 0.62 | -0.35 |
| Facklamia | -0.78 | -0.77 | -0.41 | -0.64 | -0.03 | 0.47 |
| Faecalibacterium | 0.75 | 0.36 | -0.85 | -0.62 | 0.71 | -0.21 |
| Jeotgalicoccus | -0.78 | -0.83 | -0.55 | -0.64 | -0.02 | 0.33 |
| Klebsiella | -0.85 | -0.88 | -0.86 | -0.84 | -0.18 | 0.15 |
| Kocuria | -0.68 | -0.52 | -0.42 | -0.62 | -0.12 | 0.16 |
| Lactobacillus | 0.06 | -0.3 | 0.85 | 0.83 | -0.61 | 0.25 |
| Nocardiopsis | -0.85 | -0.79 | -0.64 | -0.81 | NA | 0.41 |
| Oceanobacillus | -0.75 | -0.23 | -0.23 | -0.75 | NA | NA |
| Pediococcus | -0.34 | -0.73 | -0.28 | 0.21 | -0.55 | -0.05 |
| Propionibacterium | NA | -0.31 | -0.21 | 0.2 | -0.12 | 0.05 |
| Proteus | -0.85 | -0.76 | -0.77 | -0.85 | -0.21 | -0.23 |
| Pseudomonas | -0.5 | -0.88 | -0.88 | -0.5 | -0.12 | -0.12 |
| Ruminococcus | 0.83 | 0.69 | -0.85 | -0.52 | 0.67 | -0.22 |
| Salinicoccus | -0.8 | -0.75 | -0.45 | -0.37 | -0.21 | 0.32 |
| Serratia | -0.55 | -0.67 | -0.67 | -0.55 | -0.22 | -0.22 |
| Staphylococcus | -0.84 | -0.85 | -0.66 | -0.68 | -0.26 | 0.31 |
| Streptomyces | -0.6 | -0.88 | -0.87 | -0.56 | -0.18 | -0.03 |
| Trichococcus | -0.78 | -0.73 | -0.56 | -0.7 | -0.22 | 0.25 |
| Unclassified Actinobacteria | -0.85 | -0.86 | -0.68 | -0.8 | -0.37 | -0.06 |
| Unclassified Aerococcaceae | -0.55 | -0.61 | -0.58 | -0.51 | NA | 0.2 |
| Unclassified Bacilli | -0.79 | -0.64 | -0.33 | -0.54 | -0.20 | 0.25 |
| Unclassified Catabacteriaceae | 0.92 | 0.53 | -0.79 | -0.2 | 0.87 | -0.29 |
| Unclassified Clostridiaceae | -0.08 | -0.48 | -0.25 | 0.15 | -0.29 | -0.09 |
| Unclassified Clostridiales | 0.79 | 0.6 | -0.85 | -0.71 | 0.74 | -0.16 |
| Unclassified Dermabacteraceae | -0.8 | -0.79 | -0.62 | -0.72 | -0.29 | 0.11 |
| Unclassified Dietziaceae | -0.65 | -0.67 | -0.54 | -0.53 | 0.05 | 0.38 |
| Unclassified Enterobacteriaceae | -0.72 | -0.75 | -0.85 | -0.84 | 0.18 | -0.57 |
| Unclassified Enterococcaceae | -0.84 | -0.86 | -0.49 | -0.71 | -0.65 | -0.03 |
| Unclassified Erysipelotrichaceae | 0.72 | 0.11 | -0.82 | -0.48 | 0.62 | -0.38 |
| Unclassified Lachnospiraceae | 0.83 | 0.83 | -0.85 | -0.3 | 0.73 | -0.22 |
| Unclassified Lactobacillales | -0.84 | -0.85 | -0.58 | -0.7 | -0.58 | -0.06 |
| Unclassified Planococcaceae | 0.52 | 0.03 | -0.76 | -0.24 | 0.61 | -0.12 |
| Unclassified RF39 | 0.84 | 0.49 | -0.83 | -0.45 | 0.80 | -0.29 |
| Unclassified Rickettsiales | -0.53 | -0.88 | -0.81 | -0.01 | -0.43 | 0.23 |
| Unclassified Ruminococcaceae | 0.83 | 0.72 | -0.85 | -0.72 | 0.81 | -0.32 |
| Unclassified Streptophyta | -0.6 | -0.88 | -0.74 | 0.17 | -0.51 | 0.54 |
| Vagococcus | -0.85 | -0.76 | -0.67 | -0.84 | NA | 0.29 |
| Weissella | -0.81 | -0.74 | -0.41 | -0.46 | -0.30 | 0.32 |
| Yaniella | -0.58 | -0.31 | -0.14 | -0.51 | -0.12 | 0.15 |
Positive correlated taxa are coloured red, while negatively associated taxa are coloured yellow and grey indicates non-significant association. Significance was set a P<0.05 level. NA indicates that a particular genus was absent in both sample types.