Comments on duck circovirus (DuCV) genotype definition |
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Authors: | Huiqiang Wen Yongshu Wu Chao Yang Xiaona Zhang Chuanjiang Lian Hongyan Chen Lingxia Han |
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Institution: | Laboratory Animal and Comparative Medicine Unit, State Key Laboratory of Veterinary Biotechnology, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin 150001, People''s Republic of China |
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Abstract: | A standardised methodology has been used to define genotypes based on pairwise sequence comparisons (PASC). PASC is a widely accepted method in virus taxonomy, which is based on the histogram of pairwised differences among sequences. Recently, Zhang et al. (2013) concluded that the average p-distance of duck circovirus (DuCV) between genotypes 1 and 2 was 0.170, and subtype distance thresholds were 0.032 in DuCV-1 and 0.018 in DuCV-2, respectively. However, there might be some concerns on the methodology application to define the genotype of DuCV. Taking into account the concerns mentioned above, our authors conducted the PASC analyses of 54 capsid gene (ORF2) and genomic sequences including all the sequences from Zhang et al. (2013). Our results confirmed the existence of two DuCV genotypes (1 and 2) and, we suggest that DuCV ORF2 and genomic distance genotype thresholds were 0.061 and 0.038, respectively. |
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Keywords: | DuCV duck circovirus PASC pairwise sequence comparisons PCV1 porcine circovirus type 1 PCV2 porcine circovirus type 2 GoCV goose circovirus ICTV International Committee on Taxonomy of Viruses |
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