Genetic diversity, reassortment, and recombination of mammalian orthoreoviruses from Japanese porcine fecal samples

Fukase, Yuka; Minami, Fujiko; Masuda, Tsuneyuki; Oi, Toru; Takemae, Hitoshi; Ishida, Hiroho; Murakami, Hironobu; Aihara, Naoyuki; Shiga, Takanori; Kamiie, Junichi; Furuya, Tetsuya; Mizutani, Tetsuya; Oba, Mami; Nagai, Makoto

doi:10.1007/s00705-022-05602-8

Cited by 6 publications

(5 citation statements)

References 46 publications

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“…The μB protein tended to be conserved to a similar degree as the core proteins as observed previously for other orthoreoviruses ( 5 , 29 ). Furthermore, in the comparison with MAHLV we found identity values above the demarcation criteria defined for distinct species for three additional sequences (λB 65.76–66.72% aa; λA 60.37–62.23% nt; and λB 62.37–63.98% nt identity) confirming the tree topologies where MAHLV appeared to be the closest relative of reptile origin orthoreoviruses ( 27 , 30 , 31 ).…”

Section: Resultssupporting

confidence: 73%

Genetic diversity among reptilian orthoreoviruses isolated from pet snakes and lizards

Varga-Kugler

Ihász²,

Marton³

et al. 2023

Front. Vet. Sci.

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Reovirus infections in reptiles are frequently detected and associated with various clinical diseases; yet, our knowledge about their genetic diversity and evolutionary relationships remains limited. In this study, we characterize at the genomic level five reptile origin orthoreovirus strains isolated from exotic snakes and lizards in Hungary and Germany. The genomic organization of the study strains was similar to that of the representative strains of reptile origin reoviruses belonging to species Reptilian orthoreovirus and Testudine orthoreovirus. Additionally, all five study strains clustered with the bush viper origin reference Reptilian orthoreovirus strain, 47/02. The nucleotide sequence divergence among strains fell from 56.64 to 99.36%. Based on genome segment constellations two well separated groups were observed, which may represent two genetic lineages of reptilian orthoreoviruses we tentatively referred here as genogroups, classifying two squamata origin strains with available whole genome sequences into genogroup I (GGI) and four strains into genogroup II (GGII). The representative GGI and GGII Reptilian orthoreovirus strains are characterized by moderate-to-high nucleotide and amino acid similarities within genogroups (range, 69.45 to 99.36% and 74.64 to 100.00%), whereas lower nucleotide and amino acid similarities (range, 56.64 to 77.24% and 54.53 to 93.85%) and different structures of the bicistronic S1 segment were found between genogroups. Further studies are needed to explore the genomic diversity among reptilian reoviruses of squamata origin; this would be critical to establish a robust classification system for these viruses and to see if interaction among members of distinct lineages may result in viable progenies with novel genetic features.

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Section: Resultssupporting

confidence: 73%

Genetic diversity among reptilian orthoreoviruses isolated from pet snakes and lizards

Varga-Kugler

Ihász²,

Marton³

et al. 2023

Front. Vet. Sci.

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“…The serotypes were classified into 4 types (MRV1 to 4, respectively) based on the S1 segment [4]. MRV1 to 3 serotypes were isolated from pigs in worldwide [8,16,17,19,39] including Japan [6,7,11]. Some studies have shown that MRVs isolates caused severe symptoms and mortality in experimentally infected piglets and pigs [32,36], which means that MRVs have the potential to cause serious problems on swine industry.…”

Section: Introductionmentioning

confidence: 99%

“…Although data on the surveillance in pig farms can help to control MRVs infection among pigs, the surveillance report in Japan is limited. The latest report showed that five MRVs were isolated from 230 porcine feces in Japan [6].…”

Section: Introductionmentioning

confidence: 99%

Isolation, molecular characterization, and disinfectants susceptibility of swine-carried mammalian orthoreoviruses in Japan in 2020–2022

Miyaoka

Kadota

Kabir

et al. 2023

The Journal of Veterinary Medical Science

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Biosecurity enhancement contributes to the reduction of various microbial pathogens. Mammalian orthoreoviruses (MRVs) which are increasingly recognized as potentially serious problems on swine industry were used as indicators of biosecurity enhancement on two pig farms. Twelve MRVs were detected and isolated from fecal specimens of healthy pigs collected from one of two farms in Japan.By sequencing based on the partial S1 gene, MRV isolates were classified as MRV1 and MRV2.Additionally, the virucidal activities of disinfectants toward the isolated MRV1 were evaluated using quaternary ammonium compound (QAC) diluted 500 times with water (QAC-500), 0.17% food additive glade calcium hydroxide (FdCa(OH)2) solution, QAC diluted with 0.17% FdCa(OH)2 solution (Mix-500), sodium hypochlorite at 100 or 1,000 parts per million (ppm) of total chlorine (NaClO-100 or NaClO-1000, respectively). To efficiently inactivate MRV1 (≥ 3 log10 reductions), 0.17% FdCa(OH)2, Mix-500 and NaClO-1000 required 5 min, whereas it took 30 min for QAC-500. The number of MRV detections has decreased over time, after using Mix-500 for disinfection on the positive farm. These results suggest that different serotypes of MRVs are circulating among pigs, and that the occurrence of MRVs in the farms decreased consequent to more effective disinfection.

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“…Briefly, the RNAs were treated with DNase I (Takara Bio), and cDNA libraries were constructed using an NEBNext Ultra II RNA Library Prep Kit for Illumina (New England Biolabs, Ipswich, MA, USA), as described previously [5]. However, a sufficient number of Bo_ ParV-specific sequence reads were not obtained.…”

mentioning

confidence: 99%

“…qRT-PCR-positive samples were subjected to virus isolation using MA104 cells as described previously [5]. Extensive cytopathic effect appeared in the MA104 cells two or three days after inoculation at the second or third passages.…”

mentioning

confidence: 99%

Genetic diversity and recombination event in bovine parechovirus infecting Japanese cattle

Oba

Obinata

Takemae

et al. 2022

Preprint

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The first bovine parechovirus (Bo_ParV) was reported in 2021 and only two nearly complete genomes of Bo_ParV were available. In this study, we detected Bo_ParVs in 10 out of 158 bovine fecal samples using real-time RT-PCR and Bo_ParVs were isolated from three of these samples using MA104 cells. Analysis of the P1 region revealed that Bo_ParVs shared high pairwise amino acid sequence identities (≥95.7%), suggesting antigenic similarity among Bo_ParVs, whereas nucleotide sequence identities were diverse (≥84.8%). A recombination break point was identified in the 2B region, which may influence the evolution of this virus.

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Genetic diversity, reassortment, and recombination of mammalian orthoreoviruses from Japanese porcine fecal samples

Cited by 6 publications

References 46 publications

Genetic diversity among reptilian orthoreoviruses isolated from pet snakes and lizards

Genetic diversity among reptilian orthoreoviruses isolated from pet snakes and lizards

Isolation, molecular characterization, and disinfectants susceptibility of swine-carried mammalian orthoreoviruses in Japan in 2020–2022

Genetic diversity and recombination event in bovine parechovirus infecting Japanese cattle

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