Table 3.

Pathogen identity found in the kidney of juvenile Atlantic salmon from six rivers in Québec: Sainte-Marguerite (SM), Laval (LA), Trinité (TR), Causapscal (CA), Dartmouth (DA) and Saint-Jean (SJ). (GenBank sequence accession number for the myxozoa and each bacterium is indicated. Nearest taxonomic neighbour (genus or order for myxozoa) and proportion of sequence similarity with GenBank available species for each associated genus is indicated. Prevalence indicates the proportion of salmon infected per river over all time periods during summer.)

no.	pathogen type	sequence accession number	nearest taxonomic neighbour	sequence similarity (%)	prevalence (%)
					north			south
					SM	LA	TR	CA	DA	SJ
1	myxozoa	FJ560442	Bivalvulidae	85	3.3	7.7	0.0	14.3	16.4	11.8
2	bacteria	FJ560443	Mycoplasma sp. 1	85	0.0	0.0	1.7	0.0	1.5	0.0
3	bacteria	FJ560444	Mycoplasma sp. 2	96	0.0	0.0	0.0	0.0	0.0	1.5
4	bacteria	FJ560445	Sphingomonas sp.	98	0.0	0.0	1.7	0.0	0.0	0.0
5	bacteria	FJ560446	Methylobacterium sp. 1	99	0.0	0.0	1.7	0.0	0.0	0.0
6	bacteria	FJ560447	Methylobacterium sp. 2	96	0.0	0.0	1.7	0.0	0.0	0.0
7	bacteria	FJ560448	Rickettsiella sp.	96	0.0	0.0	1.7	0.0	0.0	0.0
8	bacteria	FJ560449	Pseudomonas sp.	95	0.0	0.0	0.0	0.0	1.5	0.0
9	bacteria	FJ560450	Shewanella sp.	96	0.0	0.0	0.0	0.0	1.5	0.0
10	bacteria	FJ560451	Bosea sp.	93	0.0	0.0	0.0	1.3	0.0	1.5
11	bacteria	FJ560452	Piscirickettsia sp.	83	0.0	0.0	0.0	0.0	0.0	4.4
12	bacteria	FJ560453	Lactobacillus sp.	100	0.0	0.0	0.0	0.0	1.5	0.0
13	bacteria	FJ560454	Burkholderia sp.	87	0.0	0.0	0.0	2.6	0.0	0.0