Table 4.

Categorization of stated objectives for articles included in scoping review and proportion of included articles in each category.

Objective category and source	Article specific to a gene, AMR profile, or other genetic element?	Proportion of articles (%)	Article citation
Epidemiology and/or prevalence study (54.2%)
Hospital or clinical setting only	Yes	16.7	(6, 26, 46, 49, 62, 72, 73, 90, 92, 93, 95, 96)
	No	1.4	(64)
Regionally specific study (may include clinical setting)	Yes	20.8	(24, 27, 28, 37, 45, 47, 50, 63, 74, 75, 78–80, 82, 85)
	No	4.2	(25, 36, 65)
Outbreak study	Yes	6.9	(20, 51, 52, 87, 94)
	No	–
Food animal related (including retail meats and animal samples)	Yes	2.8	(55, 67)
	No	–
Other	Yes	–
	No	1.4	(41)
Comparative genomics (29.1%)
Regionally specific study (may include clinical setting)	Yes	8.3	(28, 56, 63, 75, 77, 83)
	No	1.4	(53)
Food animal related (including retail meats and animal samples)	Yes	–
	No	6.9	(8, 13, 38, 68, 84)
Other (multiple sources)	Yes	2.8	(58, 59)
	No	9.7	(9, 38–41, 54, 57)
Genetic and/or molecular characterization (23.5%)
Hospital or clinical setting only	Yes	8.3	(26, 48, 49, 60, 89, 93)
	No	–
Regionally specific study (may include clinical setting)	Yes	6.9	(44, 66, 75, 81, 91)
	No	–
Food animal related (including retail meats and animal samples)	Yes	6.9	(55, 61, 67, 69, 70)
	No	1.4	(54)
Description of novel finding (14.0%)
Hospital or clinical setting only	Yes	2.8	(60, 86)
	No	–
Regionally specific study (may include clinical setting)	Yes	4.2	(37, 74, 81)
	No	–
Outbreak study	Yes	1.4	(88)
	No	–
Food animal related (including retail meats and animal samples)	Yes	2.8	(11, 71)
	No	–
Other	Yes	1.4	(43)
	No	1.4	(76)
Comparison or development of technique(s) (5.6%)
Hospital or clinical setting only	Yes	2.8	(6, 92)
	No	–
Regionally specific study (may include clinical setting)	Yes	1.4	(27)
	No	–
Outbreak study	Yes	–
	No	1.4	(42)