Table 1. Thirty-six infectious agents tested on 2,655 juvenile Coho salmon, between 2008 and 2018, along with their overall prevalences (%).

The 31 detected agents are presented in the decreasing order of prevalence.

Agent	Abbreviation	Type a	N	Positive	Prevalence b
1. Candidatus Brachiomonas cysticola	c_b_cys	B	2,647	2,363	89.3
2. Paraneuclospora theridion	pa_ther	P	2,596	1,023	39.4
3. Parvicapsula pseudobranchiocola	pa_pse	P	2,584	965	37.3
4. Loma salmonae	lo_sal	P	2,624	756	28.8
5. Parvicapsula minibicornis	pa_min	P	2,596	691	26.6
6. Myxobolus arcticus	my_arc	P	2,640	289	10.9
7. Flavobacterium psychrophilum	fl_psy	B	2,623	217	8.3
8. 1. Gill chlamydia	sch	B	2,638	202	7.7
9. Parvicapsula kabatai	pa_kab	P	2,645	164	6.2
10. Ceratonova shasta	ce_sha	P	2,646	144	5.4
11. Tetracapsuloides bryosalmonae	te_bry	P	2,648	129	4.9
12. Ichthyophonus hoferi	ic_hof	P	2,644	97	3.7
13. Erythrocytic necrosis virus	env	V	2,641	91	3.4
14. Tenacibaculum maritimum	te_mar	B	2,622	85	3.2
15. Piscine OrthoReovirus	prv	V	2,652	79	3.0
16. Sphaerothecum destructuens	sp_des	P	2,653	55	2.1
17. Myxobolus insidiosus	my_ins	P	2,651	49	1.8
18. Nanophyetus salmincola	na_sal	P	2,654	48	1.8
19. Crybtobia salmonistica	cr_sal	P	2,655	43	1.6
20. Kudoa thyrsites	ku_thy	P	2,649	45	1.7
21. Facilispora margolisi	fa_mar	P	2,626	36	1.4
22. Ichthyophthirius multifiliis	ic_mul	P	2,571	21	0.8
23. Renibacterium salmoninarum	re_sal	B	2,654	16	0.6
24. Viral hemorrhagic septicemia virus	vhsv	V	2,640	18	0.7
25. Dermocystidium salmonis	de_sal	P	2,655	17	0.6
26. Piscichlamydia salmonis	pch_sal	B	2,569	16	0.6
27. Rickettsia-like organism	rlo	B	2,651	10	0.4
28. Vibrio salmonicida	vi_sal	B	2,650	6	0.2
29. Neoparamoeba perurans	ne_per	P	2,654	5	0.2
30. Piscirickettsia salmonis	pisck_sal	B	2,650	4	0.2
31. Pacific salmon parvovirus	pspv	V	2,651	4	0.2
32. Yersinia ruckeri	ye_ruc_glnA	B	2,654	1	0.0
33. Aeromonas salmonicida	ae_sal	B	2,655	0	0.0
34. Infectious hematopoietic necrosis virus	ihnv	V	2,655	0	0.0
35. Viral encephalopathy & retinopathy virus	ver	V	2,655	0	0.0
36. Vibrio anguillarum	vi_ang	B	2,655	0	0.0

^aType of agent: B = Bacterium, V = Virus, P = Parasite

^bOverall ‘prevalence’ was defined as the number of test-positive samples divided by the total number of samples tested for each given infectious agent with conclusive results (i.e. positive / N).