Abstract
Three rotavirus variants with a rearranged RNA segment derived from the NSP3 gene were isolated in three independent experiments of coinfection and multiple passages of simian rotavirus strain SA11 and single-VP7-gene- or NSP1-gene-substitution reassortants having genetic background of SA11. Sequence analysis indicated that the three rearranged NSP3 genes had almost identical sequences and genomic structures organized by partial duplication of the open reading frame in a head-to-tail orientation following the termination codon. The junction site of the original NSP3 gene (first copy) and the duplicated portion (second copy) was identical among the three rearranged genes, while a direct repeat, i.e., a homologous sequence between the first copy and second template for duplication, typically located at the junction site, was not detected. However, short similar sequences were present at the end of the first copy and beginning of the second copy. These findings suggest that rearrangement of the NSP3 gene may occur at a certain preferential site which is related to sequence similarity between 3′-untranslated region and a region near the 5′-end of ORF.
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Acknowledgment
This study was supported in part by a Grant-in-Aid for Scientific Research (No.15406028) and the Program of Founding Research Centers for Emerging and Reemerging Infectious Diseases (Okayama University–National Institute of Cholera and Enteric Diseases, India) from the Ministry of Education, Culture, Sports, Science, and Technology, Japan, and a Grant for International Health Cooperation Research (18-5) from the Ministry of Health, Labour, and Welfare of Japan.
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Alam, M.M., Kobayashi, N., Ishino, M. et al. Identical rearrangement of NSP3 genes found in three independently isolated virus clones derived from mixed infection and multiple passages of Rotaviruses. Arch Virol 153, 555–559 (2008). https://doi.org/10.1007/s00705-007-0004-7
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DOI: https://doi.org/10.1007/s00705-007-0004-7