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This study's whole-genome data set provides high density sampling of viruses circulating in Canada throughout weeks 05 through 19 of the global A/H1N1pdm wave 1 outbreak (n = 168) and additional sampling of circulating A/H1N1pdm viruses during weeks 23 through 31 (n = 42) (Figure S1), which just precedes Canada's wave 2 peak (occurring at outbreak week 32; Figure S2).
NO = nosocomial outbreak; n. d. = not defined.
For an n-phase epidemic outbreak, n – 1 local minima separate the n phases.
ST211 strains were obtained from patients in 1 outbreak (n = 2) in 1993 and from 13 patients with sporadic cases.
Foodborne outbreaks were described on an outbreak level with only 1 sample representing each outbreak (n = 46 outbreaks).
ST226 was also differentiated from strains responsible for a suspected outbreak (n = 2) and is specific to Ontario.
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These new variants caused an even larger number of NoV outbreaks, (n = 141 in 2004 05 and n = 251 in 2006 07) respectively.
A real time PCR assay based on this sequence was used to test for the presence of the candidate virus in RNA extracts of heart and serum obtained from salmon with HSMI in association with spontaneous outbreaks (n = 20) or experimental infection (n = 20), and in non-infected control fish (n = 20).
Serotype 4b caused the largest number of outbreaks (n = 10) and outbreak-associated cases (n = 218).
†Percentages for specific single agents are those among all single-agent etiology outbreaks (N = 2,819).
Many FMD outbreaks (n = 292) were reported in Miyazaki Prefecture, Japan (April June 2010).
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