Abstract
Norovirus is one of the major causes of non-bacterial gastroenteritis in humans. The aim of this study was to analyze the amino acid variation of open reading frame 2 of GII.4 variants in South Korea during the period from November 2006 to December 2012. Sixty-nine complete nucleotide sequences of open reading frame 2 were obtained from 113 GII.4 strains. The GII.4 2006b variants were detected predominantly between 2006 and 2009; however, new GII.4 variants, which were termed the 2010 variant and the 2012 variant, emerged in 2010 and 2012, respectively. The number of GII.4 2006b variants steadily decreased until 2012, whereas the number of gastroenteritis cases caused by the new variants increased between 2010 and 2012. The amino acid sequence in the ORF2 region obtained in this study was compared with other GII.4 variants isolated in various countries. Amino acid variations were observed primarily at epitope sites and the surrounding regions. Amino acids 294, 359, 393, and 413 of the P2 subdomain were the most variable sites among the GII.4 variants. The information in this study can be useful in basic research to predict the emergence and determine the genetic functions of new GII.4 variants.
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Ando, T., Noel, J.S., and Fankhauser, R.L. 2000. Genetic classification of “Norwalk-like Virus”. J. Infect. Dis. 181, S336–348.
Belliot, G., Kamel, H.A., Estienney, M., Ambert-Balay, K., and Pothier, P. 2010. Evidence of emergence of new GGII.4 norovirus variants from gastroenteritis outbreak survey in France during the 2007-to-2008 and 2008-to-2009 winter season. J. Clin. Microbiol. 48, 994–998.
Bill, A.R., Eden, J.S., Rawlinson, D.W., and White, A.P. 2010. Rapid evolution of pandemic noroviruses of the GII.4 linage. PLoS Pathog. 6, e1000831.
Bull, A.R. and White, A.P. 2011. Mechanisms of GII.4 norovirus evolution. Trends Microbiol. 19, 233–240.
Donaldson, F.E., Lindesmith, C.L., LeBue, D.A., and Baric, S.R. 2010. Viral shape-shifting: norovirus evasion of the human immune system. Nat. Rev. Microbiol. 8, 231–241.
Eden, J.S., Tanaka, M.M., Boni, F.M., Rawlinson, D.W., and White, A.P. 2013. Recombination within the pandemic norovirus GII.4 lineage. J. Virol. 87, 6270–6282.
Han, T.H., Kim, C.H., Chung, J.Y., Park, S.H., and Hwang, E.S. 2011. Emergence of norovirus GII-4/2008 variant and recombinant strains in Seoul, Korea. Arch. Virol. 156, 323–329.
Haslng, E.M., Lee, E.B., Prelksaltls, K.J., Tellier, R., Honish, L., Senthilselven, A., and Pang, L.X. 2013. Emergence of a new norovirus GII.4 variant and changes in the historical biennial pattern of norovirus outbreak activity in Alberta, Canada, from 2008 to 2013. J. Clin. Microbiol. 51, 2204–2211.
Huh, J.W., Kim, W.H., Moon, S.G., Lee, J.B., and Lim, Y.H. 2008. Viral etiology and incidence associated with acute gastroenteritis in a 5-year survey in Gyeonggi province, South Korea. J. Clin. Virol. 44, 152–156.
Jeong, A.Y., Yoon, S.I., Ji, Y.M., Kang, Y.S., and Lee, Y.M. 2009. Molecular characterization of a Korean isolate of human norovirus, the Hu/NLV/Gunpo/2006/KO strain. Kor. J. Microbiol. 45, 105–111.
Lam, T.Y.T., Zhu, H., Smith, K.D., Guan, Y., Holmes, C.E., and Pybus, G.O. 2012. The recombinant origin of emerging human norovirus GII.4/2008: intra-genotypic exchange of the capsid P2 domain. J. Gen. Virol. 93, 817–822.
Le, V.P., Jung, Y.C., Kang, K.S., Lim, I.S., Myung, S.C., and Kim, W.Y. 2010. Genetic characterization of norovirus GII.4 2006b variants from Jeju island, South Korea. J. Med. Virol. 82, 1665–1070.
Lindesmith, C.L., Beltramello, M., Donaldson, F.E., Corti, D., Swanstrom, J., Debbink, K., Lanzavecchia, A., and Baric, S.R. 2012. Imminogenetic mechanisms driving norovirus GII.4 antigenic variation. PLoS Pathog. 8, e1002705.
Lindesmith, C.L., Costantini, V., Swanstrom, J., Debbink, K., Donaldson, F.E., Vinje, J., and Barica, S.R. 2013. Emergence of a norovirus GII.4 strain correlates with changes in evolving blockade epitopes. J. Virol. 87, 2803–2813.
Lindesmith, C.L., Donaldson, F.E., LoBue, D.A., Cannon, L.J., Zheng, D.P., Vinje, J., and Baric, S.R. 2008. Mechanisms of GII.4 norovirus persistence in human population. PLoS Med. 5, 269–290.
Mahar, J.E. and Kirkwood, C.D. 2011. Characterization of norovirus strains in Australian children from 2006 to 2008: prevalence of recombinant strains. J. Med. Virol. 83, 2213–2219.
Martella, V., Medici, C.M., Grazia, De S., Tommolo, F., Calderaro, A., Bonura, F., Saporito, L., Terio, V., Catella, C., Lanave, G., and et al. 2013. Evidence for recomvination berween pandemic GII.4 norovirus strains New Orleans 2009 and Sydney 2012. J. Clin. Microbiol. 51, 3855–3857.
Mathijs, E., Denayer, S., Palmeira, L., Botteldoorn, N., Scipioni, A., Vanderplasschen, A., Thiry, E., and Dierick, K. 2011. Novel norovirus recombinants and GII.4 sub-lineages associated with outbreaks between 2006 and 2010 in Belgium. Virol. J. 8, 310.
Motomura, K., Oka, T., Yokoyama, M., Nakamura, H., Mori, H., Ode, H., Hansman, S.G., Katayama, K., Kanda, T., Tanaka, T., and et al. 2008. Identification of monomorphic and divergent haplotypes in the 2006–2007 norovirus GII/4 epidemic population by genomewide tracing evolutionary history. J. Viol. 82, 11247–11262.
Nataraju, S.M., Pativada, M.S., Kumar, R., Bhattacharya, M.K., Bagchi, S.R., Kobayashi, N., and Krishnan, T. 2011. Emergence of novel norovirus recombinants with NVGII.1/NVGII.5 RdRp gene and NVGII.13 capsid gene among children and adults in Kolkata, India. Int. J. Mol. Epidemiol. Genet. 2, 130–137.
Pang, L.X., Preiksaitis, K.J., Wong, S., Li, V., and Lee, E.B. 2010. Influence of novel norovirus GII.4 variants on gastroenteritis outbreak dynamics in Alberta and the Northern Territories, Canada between 2000 and 2008. PLoS One 5, e11599.
Park, K.S., Jeong, H.S., Baek, K.A., Lee, C.G., Park, S.M., Park, J.S., Choi, Y.J., Choi, H.J., and Cheon, D.S. 2010. Genetic analysis of norovirus GII.4 variants circulating in Korea in 2008. Arch. Virol. 155, 635–641.
Park, J.W., Lee, S.G., Lee, Y.M., Jheong, W.H., Ryu, S.R., and Paik, S.Y. 2011. Full sequence analysis and characterization of the South Korean Norovirus GII-4 variant CUK-3. Virol. J. 8, 167.
Park, K.S., Yeo, S.G., Jeong, H.S., Beak, K.A., Kim, D.U., Shin, M.H., Song, J.H., Lee, S.J., Choi, Y.J., Park, J.S., and et al. 2012. Updates on the genetic variations of Norovirus in sporadic gastroenteritis in Chungnam Korea, 2009–2010. Virol. J. 9, 29.
Saitou, N. and Nei, M. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4, 406–425.
Shanker, S., Choi, J.M., Sankaran, B., Atmar, L.R., Estes, K.M., and Prasad, B.V.V. 2011. Structural analysis of histo-blood antigen biding specificity in a norovirus GII.4 epidemic variant: Implications for epochal evolution. J. Viol. 85, 8635–8645.
Siebenga, J.J., Vennema, H., Renchens, B., Bruin, de E., van der Veer, B., Siezen, J.R., and Koopmans, M. 2007. Epochal evolution of GGII.4 norovirus capsid proteins from 1995 to 2006. J. Virol. 81, 9932–9941.
Siebenga, J.J., Vennema, H., Zheng, D.P., Vinjé, J., Lee, E.B., Pang, X.L., Ho, M.C.E., Lim, W., Choudekar, A., Broor, S., and et al. 2009. Norovirus illness is a global problem: Emergence and spread of norovirus GII.4 variants, 2001–2007. J. Infect. Dis. 200, 802–812.
Tan, M. and Jiang, X. 2005. The P domain of norovirus capsid protein forms a subviral particle that bind to histo-blood group antigen receptor. J. Viol. 79, 14017–14030.
van Beek, J., Ambert-Balay, K., Botteldoorn, N., Eden, J.S., Fonager, J., Hewitt, J., Iritani, N., Kroneman, A., Vennema, H., Vinje, J., and et al. 2013. Indications for worldwide increased norovirus activity associated with emergence of a new variant of genotype II.4, late 2012. Euro Surveill. 18, 8–9.
Vega, E., Barclay, L., Gregoricus, N., Williams, K., Lee, D., and Vinjé, J. 2011. Novel surveillance network for norovirus gastroenteritis outbreaks, United States. Emerg. Infect. Dis. 17, 1989–1395.
Zakikhany, K., Allen, D.J., Brown, D., and Iturriza-Gómara, M. 2012. Molecular evolution of GII-4 norovirus strain. PLoS One 7, e41625.
Zheng, D.P., Ando, T., Fankhauser, L.R., Beard, S.R., Glass, I.R., and Monroe, S.S. 2006. Norovirus classification and proposed strain nomenclature. Virology 346, 312–323.
Zheng, D.P., Widdowson, M.A., Glass, I.R., and Vinjé, J. 2010. Molecular epidemiology of genogroup II-genotype 4 norovirus in the United States between 1994 and 2006. J. Clin. Microbiol. 48, 168–177.
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Kim, JE., Lee, SG., Cho, HG. et al. Genetic analysis of the capsid region of norovirus GII.4 variants isolated in South Korea. J Microbiol. 52, 427–434 (2014). https://doi.org/10.1007/s12275-014-3538-x
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DOI: https://doi.org/10.1007/s12275-014-3538-x