Table 4.

Unique AMR gene families identified via total and targeted sequencing.

Sample	Genes families identified (%)
	Both	Baited	Unbaited
Beef 1	16 (61%)	8 (31%)	2 (8%)
Beef 2	12 (32%)	24 (65%)	1 (3%)
Beef 3	7 (28%)	18 (72%)	0
Beef 4	10 (67%)	4 (27%)	1 (7%)
Chicken 1	54 (76%)	17 (24%)	0
Chicken 2	35 (70%)	14 (28%)	1 (2%)
Chicken 3	39 (83%)	6 (13%)	2 (4%)
Chicken 4	13 (43%)	16 (53%)	1 (3%)
Oyster 1	16 (41%)	21 (54%)	2 (5%)
Oyster 2	11 (46%)	13 (54%)	0
Shrimp 1	21 (21%)	78 (78%)	1 (1%)
Shrimp 2	10 (16%)	51 (82%)	1 (2%)
Veal 1	6 (43%)	8 (57%)	0
Veal 1_TR	7 (39%)	11 (61%)	0
Veal 2	68 (62%)	40 (36%)	2 (2%)
Veal 3	55 (85%)	10 (15%)	0
Total	380	339	14