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Viruses 2013, 5(2), 550-567; doi:10.3390/v5020550
Article

Genetic Diversity of Spike, 3a, 3b and E Genes of Infectious Bronchitis Viruses and Emergence of New Recombinants in Korea

1,3,4,†
, 1,†
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 and 1,3,*
Received: 12 December 2012; in revised form: 21 January 2013 / Accepted: 24 January 2013 / Published: 31 January 2013
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Abstract: The nucleotide sequences of a region including S1, S2, 3a, 3b and E genes of twenty-seven infectious bronchitis virus (IBV) isolates in Korea between 1990–2011 were determined and phylogenetic and computational recombination analyses were conducted. The sizes of coding regions of some genes varied among IBV isolates due to deletion or insertion of nucleotides; the nucleotide similarities of S1, S2, 3a, 3b and E genes among the 27 isolates were 75.9%–100.0%, 85%–100.0%, 64.0%–100.0%, 60.4%–100.0% and 83.1%–100.0%, respectively. According to phylogenetic analysis of S1 gene, the 27 isolates were divided into five genotypes, Mass, Korean-I (K-I), QX-like, KM91-like and New cluster 1. The phylogenetic trees based on the S2, 3a, 3b, E genes and S1-S2-3a-3b-E (S1-E) region nucleotide sequences did not closely follow the clustering based on the S1 sequence. The New cluster 1 prevalent during 2009 and 2010 was not found in 2011 but QX-like viruses became prevalent in 2011. The recombination analysis revealed two new S gene recombinants, 11036 and 11052 which might have been derived from recombinations between the New cluster 1 and QX-like viruses and between the K-I and H120 (vaccine) viruses, respectively. In conclusion, multiple IBV genotypes have co-circulated; QX-like viruses have recurred and new recombinants have emerged in Korea. This has enriched molecular epidemiology information of IBV and is useful for the control of IB in Korea.
Keywords: infectious bronchitis virus (IBV); phylogenetic analysis; genetic diversity; recombinant; vaccine infectious bronchitis virus (IBV); phylogenetic analysis; genetic diversity; recombinant; vaccine
This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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MDPI and ACS Style

Mo, M.-L.; Hong, S.-M.; Kwon, H.-J.; Kim, I.-H.; Song, C.-S.; Kim, J.-H. Genetic Diversity of Spike, 3a, 3b and E Genes of Infectious Bronchitis Viruses and Emergence of New Recombinants in Korea. Viruses 2013, 5, 550-567.

AMA Style

Mo M-L, Hong S-M, Kwon H-J, Kim I-H, Song C-S, Kim J-H. Genetic Diversity of Spike, 3a, 3b and E Genes of Infectious Bronchitis Viruses and Emergence of New Recombinants in Korea. Viruses. 2013; 5(2):550-567.

Chicago/Turabian Style

Mo, Mei-Lan; Hong, Seung-Min; Kwon, Hyuk-Joon; Kim, Il-Hwan; Song, Chang-Seon; Kim, Jae-Hong. 2013. "Genetic Diversity of Spike, 3a, 3b and E Genes of Infectious Bronchitis Viruses and Emergence of New Recombinants in Korea." Viruses 5, no. 2: 550-567.



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