Molecular epidemiological survey and phylogenetic analysis of bovine influenza D virus in Japan

Mekata, Hirohisa; Yamamoto, Misazō; Hamabe, Saori; Tanaka, Hidenori; Omatsu, Tsutomu; Mizutani, Tetsuya; Hause, Ben M.; Okabayashi, Tamaki

doi:10.1111/tbed.12765

Cited by 31 publications

(28 citation statements)

References 22 publications

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“…To our knowledge, this is the first report of identification of IDV in western Canada. IDV was initially identified in swine in the United States, and then was found to be prevalent in cattle of the United States, Luxembourg, Ireland, France, Japan and China (Flynn et al, ; Mekata et al, ; Snoeck et al, ; Su, Fu, Li, Kerlin, & Veit, ). IDV may be an emerging pathogen in Canadian cattle; or, on the other hand, the lack of Canadian reports before may be due to the unavailability of a diagnostic assay.…”

Section: Discussionmentioning

confidence: 99%

Respiratory viruses identified in western Canadian beef cattle by metagenomic sequencing and their association with bovine respiratory disease

Zhang

Hill

Fernando

et al. 2019

Transbound Emerg Dis

116

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Bovine respiratory disease (BRD) causes considerable economic losses in North America. The pathogenesis involves interactions between bacteria, viruses, environment and management factors. Primary viral infection can increase the risk of secondary fatal bacterial infection. The objective of this study was to use metagenomic sequencing to characterize the respiratory viromes of paired nasal swabs and tracheal washes from western Canadian feedlot cattle, with or without BRD. A total of 116 cattle (116 nasal swabs and 116 tracheal washes) were analysed. The presence of influenza D virus (IDV), bovine rhinitis A virus (BRAV), bovine rhinitis B virus (BRBV), bovine coronavirus (BCV) and bovine respiratory syncytial virus (BRSV) was associated with BRD. Agreement between identification of viruses in nasal swabs and tracheal washes was generally weak, indicating that sampling location may affect detection of infection. This study reported several viruses for the first time in Canada and provides a basis for further studies investigating candidate viruses important to the prevention of BRD.

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Section: Discussionmentioning

confidence: 99%

Respiratory viruses identified in western Canadian beef cattle by metagenomic sequencing and their association with bovine respiratory disease

Zhang

Hill

Fernando

et al. 2019

Transbound Emerg Dis

116

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“…IDV is an emerging pathogen and it has been found to be associated with BRD in metagenomic studies [6][7][8] but its pathogenic role is unclear. Cattle experimentally infected by IDV by itself showed mild to moderate respiratory disease [4,9] and IDV-positive samples are reported from both cattle manifesting clinical signs associated with BRD and from healthy animals [10,11].…”

Section: Introductionmentioning

confidence: 99%

Detection of a New Genetic Cluster of Influenza D Virus in Italian Cattle

Chiapponi

Faccini

Fusaro

et al. 2019

Viruses

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Influenza D virus (IDV) has been increasingly reported all over the world. Cattle are considered the major viral reservoir. Based on the hemagglutinin-esterase (HEF) gene, three main genetic and antigenic clusters have been identified: D/OK distributed worldwide, D/660 detected only in the USA and D/Japan in Japan. Up to 2017, all the Italian IDV isolates belonged to the D/OK genetic cluster. From January 2018 to May 2019, we performed virological surveillance for IDV from respiratory outbreaks in 725 bovine farms in Northern Italy by RT-PCR. Seventy-four farms were positive for IDV. A full or partial genome sequence was obtained from 29 samples. Unexpectedly, a phylogenetic analysis of the HEF gene showed the presence of 12 strains belonging to the D/660 cluster, previously unreported in Europe. The earliest D/660 strain was collected in March 2018 from cattle imported from France. Moreover, we detected one viral strain with a reassortant genetic pattern (PB2, PB1, P42, HEF and NP segments in the D/660 cluster, whilst P3 and NS segments in the D/OK cluster). These results confirm the circulation of IDV in the Italian cattle population and highlight the need to monitor the development of the spreading of this influenza virus in order to get more information about the epidemiology and the ecology of IDV viruses.

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“…The methods of RNA extraction, cDNA conversion, and real-time PCR followed those in our previous report [17]. The method of generating standard curves using real-time PCR was described in our previous report [15].…”

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confidence: 99%

Molecular epidemiological survey and phylogenetic analysis of bovine respiratory coronavirus in Japan from 2016 to 2018

et al. 2020

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Bovine coronavirus (BCoV) is an etiological agent of bovine respiratory disease (BRD). BRD is a costly illness worldwide; thus, epidemiological surveys of BCoV are important. Here, we conducted a molecular epidemiological survey of BCoV in respiratory-diseased and healthy cattle in Japan from 2016 to 2018. We found that 21.2% (58/273) of the respiratory-diseased cattle were infected with BCoV. The respiratory-diseased cattle had virus amounts 4.7 times higher than those in the asymptomatic cattle.Phylogenetic analyses showed that the BCoV identified in Japan after 2005 formed an individual lineage that was distinct from the strains found in other countries. These results suggest that BCoV is epidemic and has evolved uniquely in Japan.

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Molecular epidemiological survey and phylogenetic analysis of bovine influenza D virus in Japan

Cited by 31 publications

References 22 publications

Respiratory viruses identified in western Canadian beef cattle by metagenomic sequencing and their association with bovine respiratory disease

Respiratory viruses identified in western Canadian beef cattle by metagenomic sequencing and their association with bovine respiratory disease

Detection of a New Genetic Cluster of Influenza D Virus in Italian Cattle

Molecular epidemiological survey and phylogenetic analysis of bovine respiratory coronavirus in Japan from 2016 to 2018

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