Modeling the limits of detection for antimicrobial resistance genes in agri-food samples: a comparative analysis of bioinformatics tools

Table 3 Comparison of linear model fit between target and non-target genera

Target genus^a	Non-target genus^b	Model equation^c	p-value^d
*Enterococcus* ŷ = 4.03 + 1.00x	Bacillus	ŷ = 0.276 + 1.07x	p > 0.997
	Staphylococcus	ŷ = 1.11 + 1.26x	p > 0.051
	Salmonella	ŷ = -0.304 + 1.02x	p > 0.999
*Escherichia* ŷ = 4.09 + 1.00x	Citrobacter	ŷ = 1.48 + 0.928x	p > 0.848
	Enterobacter	ŷ = 1.39 + 0.999x	p = 1.0
	Klebsiella	ŷ = 1.46 + 0.967x	p > 0.999
	Salmonella	ŷ = 1.05 + 1.01x	p = 1.0
	Shigella	ŷ = 1.34 + 1.06x	p > 0.931
*Klebsiella* ŷ = 4.22 + 0.999x	Citrobacter	ŷ = 1.22 + 1.06x	p > 0.988
	Enterobacter	ŷ = 1.74 + 0.995x	p = 1.0
	Escherichia	ŷ = 1.6 + 1.06x	p > 0.993
*Listeria* ŷ = 4 + 1.00x	Bacillus	ŷ = 1.07 + 1.09x	p > 0.595
	Enterococcus	ŷ = 0.543 + 1.16x	p < 0.024 *
	Staphylococcus	ŷ = 0.457 + 1.17x	p < 0.016 *
*Salmonella* ŷ = 4.18 + 1.00x	Citrobacter	ŷ = 0.584 + 1.17x	p > 0.282
	Enterobacter	ŷ = 0.22 + 1.02x	p > 0.999
	Escherichia	ŷ = 1.96 + 1.01x	p > 0.999
	Klebsiella	ŷ = 0.683 + 1.03x	p > 0.999

^*Results for Listeria versus Enterococcus and Staphylococcus were slightly significant, but are still displayed
^aEquation for the linear log–log model for relationship between coverage level and operational taxonomic units is below each genus
^bFor each genus in the first column, only non-target genera with interesting (non-significant) results are listed
^cEquation for the log–log linear model fit to the relationship between coverage level and assigned operational taxonomic units for corresponding non-target genus
^dp-value following statistical comparison of slopes between target genus and non-target genus. Non-significant results are displayed (p > 0.05); p < 0.05 = *

ISSN: 1471-2180