Abstract
Mammalian orthoreoviruses (MRVs) are non-enveloped double-stranded RNA viruses with a broad host range. MRVs are prevalent worldwide, and in Japan, they have been isolated from various hosts, including humans, dogs, cats, wild boars, and pigs, and they have also been found in sewage. However, Japanese porcine MRVs have not been genetically characterized. While investigating porcine enteric viruses including MRV, five MRVs were isolated from the feces of Japanese pigs using MA104 cell culture. Genetic analysis of the S1 gene revealed that the Japanese porcine MRV isolates could be classified as MRV-2 and MRV-3. Whole genome analysis showed that Japanese porcine MRVs exhibited genetic diversity, although they shared sequence similarity with porcine MRV sequences in the DDBJ/EMBL/GenBank database. Several potential intragenetic reassortment events were detected among MRV strains from pigs, sewage, and humans in Japan, suggesting zoonotic transmission. Furthermore, homologous recombination events were identified in the M1 and S1 genes of Japanese porcine MRV. These findings imply that different strains of Japanese porcine MRV share a porcine MRV genomic backbone and have evolved through intragenetic reassortment and homologous recombination events.
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This work was supported by the JSPS KAKENHI (Grant numbers 18K05977 and 21K05947).
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Supplementary Fig. S1
Phylogenetic analysis based on nearly complete L1 (A), L2 (B), L3 (C), M1 (D), M2 (E), M3 (F), S1 (G), S2 (H), S3 (I), and S4 (J) gene nucleotide sequences of Japanese porcine MRVs and MRV strains obtained from the DDBJ/EMBL/GenBank databases. The phylogenetic trees were constructed using the maximum-likelihood method in MEGA7 with best-fit models (the GTR+G+I model for the L1, L2, L3, M1, M2, M3, S2, and S3 phylogenetic trees and the GTR+G model for the S1 and S4 phylogenetic trees). Bootstrap values above 70 (1,000 replicates) are shown. The bars represent the corrected genetic distances. Japanese porcine MRVs and Japanese MRVs from humans, wild boar, lion, and sewage are indicated in red and blue, respectively. (PDF 408 KB)
Supplementary Fig. S2
(A-a) Recombination analysis of the L3 gene segment of Bat/WIV3/CHN vs. Deer/OV204/USA (yellow curve), Bat/WIV3/CHN vs. Bat/WIV5/CHN (blue-green curve), and Deer/OV204/USA vs. Bat/WIV5/CHN (purple curve). (A-b) Similarity plots of Bat/WIV3/CHN (blue-green curve) and Deer/OV204/USA (purple curve), and Bat/WIV5/CHN as a query sequence, with a sliding window of 200 nucleotides and a moving step size of 20 nucleotides. (B-a) Recombination analysis of the L3 gene segment of Pig/4560-3/USA vs. Pig/4560-1/USA (yellow curve), Pig/4560-3/USA vs. Pig/4560-2/USA (blue-green curve), and Pig/4560-1/USA vs. Pig/4560-2/USA (purple curve). (B-b) Similarity plots of Pig/4560-3/USA (yellow curve) and Pig/4560-2/USA (purple curve), and Pig/4560-1/USA as a query sequence, with a sliding window of 200 nucleotides and a moving step size of 20 nucleotides. (C-a) Recombination analysis of the M2 gene segment of Bat/WIV4/CHN vs. Bat/WIV3/CHN (yellow curve), Bat/WIV4/CHN vs. Bat/WIV5/CHN (blue-green curve), and Bat/WIV3/CHN vs. Bat/WIV5/CHN (purple curve). (C-b) Similarity plots of Bat/WIV3/CHN (blue-green curve) and Bat/WIV4/CHN (purple curve), and Bat/WIV5/CHN as a query sequence, with a sliding window of 200 nucleotides and a moving step size of 20 nucleotides. (D-a) Recombination analysis of the M2 gene segment of Pig/HLJ/CHN vs. Human/SI-MRV01/SVN (yellow curve), Pig/HLJ/CHN vs. Bat/RpMRV-YN2012/CHN (blue-green curve), and Human/SI-MRV01/SVN vs. Bat/RpMRV-YN2012/CHN (purple curve). (D-b) Similarity plots of Pig/HLJ/CHN (yellow curve) and Bat/RpMRV-YN2012/CHN (purple curve), and Human/SI-MRV01/SVN as a query sequence, with a sliding window of 200 nucleotides and a moving step size of 20 nucleotides (PDF 159 KB)
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Fukase, Y., Minami, F., Masuda, T. et al. Genetic diversity, reassortment, and recombination of mammalian orthoreoviruses from Japanese porcine fecal samples. Arch Virol 167, 2643–2652 (2022). https://doi.org/10.1007/s00705-022-05602-8
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DOI: https://doi.org/10.1007/s00705-022-05602-8