Engineered phage with antibacterial CRISPR–Cas selectively reduce E. coli burden in mice
refers to the AUC of the spline created with a given bacteria without a given phage or CAP, or a combination of those. Thus, iAUC values usually lie between 0 and 1, where 0 indicates no growth inhibition and 1 indicates complete growth inhibition. Some biological and technical noise does result in iAUC values outside these bounds on occasion but is considered negligible.
Host range was calculated as the fraction of a panel that had an iAUC < 0.2 for each repeat. Reported standard deviations were calculated as the deviance in the number of strains with an iAUC < 0.2, and then normalized to the size of the panel, by dividing the s.d. with the size of the panel.
In in vivo studies, the effect of CAP combinations was considered complementary, and the efficacy of individual CAPs was assessed as the log-transformed difference in CFU per gram between a vehicle and a given CAP. The predicted effect of a combination was thus evaluated as the sum of these logTo get an overview of the ability of a CAP to participate in an efficacious CAP combination, we evaluate the marginal host ranges for each CAP.
To identify CAPs whose marginal host range tended to be good, we used the mode to differentiate the CAPs. The mode of the distribution for each phage was used to calculate the overall utility of phage using the density function in R v. 4.1.0.Phages were CRISPR–Cas armed by using homologous recombination. We inserted the payload in the region between the gene. Recombination was carried out in bacterial cells during phage propagation.
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