FIG 6.

Comparison of CIP and bacterial cell numbers and diversity. PMA-treated milk collected from silos on the late summer collection dates are shown. (A) Estimated viable bacterial cell counts compared to the number of hours since clean in place (CIP) for each milk sample. A vertical line at 3,200 cells/ml and a horizontal line at 19 h since CIP delineate the cutoff for low and high bacterial loads in silos, respectively. (B) Microbial community structure of individual milk samples collected from silos with <19 h since CIP. (C) Microbial community structure of individual milk samples collected from silos with >19 h since CIP and low (left panel) or high (right panel) bacterial loads. A black asterisk indicates significant (LDA effect size > 2, P < 0.05) enrichment in both low- and high-cell-number groups relative to recently cleaned silos (<19 h CIP). Green and red asterisks indicate enrichment in milk containing low and high numbers of cells relative to recently cleaned silos, respectively.