Table 2.
Spearman correlation coefficients (ρ) between culture-based bacterial counts and 16S rRNA based bacterial counts
| 16S rRNA bacterial count | |||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Potential mastitis pathogens count | Staphylococcus 16S rRNA counts | Streptococcus 16S rRNA counts | Streptococcus, Aerococcus, Enterococcus and Lactococcus 16S rRNA counts | ||||||||||||||
| NSA | ON | RMS | RSA | NSA | ON | RMS | RSA | NSA | ON | RMS | RSA | NSA | ON | RMS | RSA | ||
| Bacterial Bedding Status Group¥ | |||||||||||||||||
| TBCa | Unused | ρ = 0.8, Unadj P = 0.33 (ns) | ρ = 0.54, Unadj P = 0.056 (ns) | ρ = 0.74, Unadj P = 0.002* (Adj P = 0.03)* | ρ = − 0.26, Unadj P = 0.47 (ns) | ||||||||||||
| Used | ρ = 0.5, Unadj P = 0.45 (ns) | ρ = 0.46, Unadj P = 0.12 (ns) | ρ = 0.23, Unadj P = 0.4 (ns) | ρ = − 0.28, Unadj P = 0.4 (ns) | |||||||||||||
| Staphb | Unused | ρ = 0.26, Unadj P = 0.74 (ns) | ρ = 0.26, Unadj P = 0.39 (ns) | ρ = 0.29, Unadj P = 0.29 (ns) | ρ = 0.054, Unadj P = 0.88 (ns) | ||||||||||||
| Used | ρ = 0.89, Unadj P = 0.041* (ns) | ρ = 0.51, Unadj P = 0.07 (ns) | ρ = 0.68, Unadj P = 0.005* (Adj P = 0.1) | ρ = − 0.021, Unadj P = 0.95 (ns) | |||||||||||||
| SSLOc | Unused | ρ = − 0.4, Unadj P = 0.75 (ns) | ρ = − 0.28, Unadj P = 0.36 (ns) | ρ = 0.58, Unadj P = 0.023* (ns) | ρ = 0.25, Unadj P = 0.48 (ns) | ρ = − 0.6 Unadj P = 0.42 (ns) | ρ = − 0.2, Unadj P = 0.54 (ns) | ρ = 0.59, Unadj P = 0.021* (ns) | ρ = 0.43, Unadj P = 0.22 (ns) | ||||||||
| Used | ρ = − 0.1, Unadj P = 0.87 (ns) | ρ = 0.31, Unadj P = 0.3 (ns) | ρ = − 0.17, Unadj P = 0.55 (ns) | ρ = 0.35, Unadj P = 0.29 (ns) | ρ = − 0.36, Unadj P = 0.55 (ns) | ρ = 0.18, Unadj P = 0.55 (ns) | ρ = 0.34, Unadj P = 0.22 (ns) | ρ = 0.19, Unadj P = 0.57 (ns) | |||||||||
The correlation was considered statistically significant at P < 0.05, and correlations were considered (±) strong when ρ ≥ 0.40 and (±) moderate between ρ ≥ 0.39 and ≥ 0.20
NSA new sand, ON organic non-manure, RMS recycled manure solids, RSA recycled sand bedding type
(ns), non-significant adjusted P value (i.e., P > 0.05), using Bonferroni adjustment for multiple comparisons)
¥Culture-based counts were modeled as log10 CFU/ml
aTBC total bacterial count
bStaphylococcus spp
cStreptococcus and Streptococcus like organisms (SSLO)