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

Mekata, Hirohisa; Hamabe, Saori; Sudaryatma, Putu Eka; Kobayashi, Ichiro; Kanno, Toru; Okabayashi, Tamaki

doi:10.1292/jvms.19-0587

Cited by 8 publications

(7 citation statements)

References 23 publications

(16 reference statements)

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“…BCoV infection is initiated by HE and S protein attachment to target tissues and both are important for BCoV pathogenesis [11][12][13]. The hypervariable region of the S protein is used to determine the genetic variability and evolution of BCoV viruses, and S protein sequence alignments are important in evaluating novel variants of BCoV strains [14][15][16][17][18][19].…”

Section: Introductionmentioning

confidence: 99%

Characterization of Winter Dysentery Bovine Coronavirus Isolated from Cattle in Israel

David¹,

Storm²,

Ilan

et al. 2021

Viruses

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Bovine coronavirus (BCoV) is the causative agent of winter dysentery (WD). In adult dairy cattle, WD is characterized by hemorrhagic diarrhea and a reduction in milk production. Therefore, WD leads to significant economic losses in dairy farms. In this study, we aimed to isolate and characterize local BCoV strains. BCoV positive samples, collected during 2017–2021, were used to amplify and sequence the S1 domain of S glycoprotein and the full hemagglutinin esterase gene. Based on our molecular analysis, local strains belong to different genetic variants circulating in dairy farms in Israel. Phylogenetic analysis revealed that all local strains clustered together and in proximity to other BCoV circulating in the area. Additionally, we found that local strains are genetically distant from the reference enteric strain Mebus. To our knowledge, this is the first report providing molecular data on BCoV circulating in Israel.

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Section: Introductionmentioning

confidence: 99%

Characterization of Winter Dysentery Bovine Coronavirus Isolated from Cattle in Israel

David¹,

Storm²,

Ilan

et al. 2021

Viruses

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“…In addition, from our analysis of the association of microorganisms and metabolites, we found that non-dominant microorganisms also had strong associations with non-dominant metabolites. BRD is a multifactorial disease and a mixed infection by multiple pathogenic microorganisms can lead to metabolic disorders of organisms [ 8 ]. Due to the diversity and complexity of the microbial ecosystem, we only analyzed dominant microbes and metabolites at present.…”

Section: Discussionmentioning

confidence: 99%

“…Among them, pathogen infection and respiratory microbial imbalance are important causative factors [ 4 , 5 , 6 ]. The viral pathogens most often identified are Bovine herpesvirus type 1 , Bovine parainfluenza-3 , Bovine coronavirus , and Bovine viral diarrhea virus [ 7 , 8 ], while common bacterial pathogens include Mannheimia haemolytica , Pasteurella multocida , Histophilus , and Mycoplasma [ 9 , 10 ]. Increasing evidence suggests the importance of pathogens encountering the resident microbiota and other pathogens while colonizing the host.…”

Section: Introductionmentioning

confidence: 99%

Integrative Analysis of the Nasal Microbiota and Serum Metabolites in Bovines with Respiratory Disease by 16S rRNA Sequencing and Gas Chromatography/Mass Selective Detector-Based Metabolomics

Zhang

Han

et al. 2022

IJMS

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Bovine respiratory disease (BRD) continues to pose a serious threat to the cattle industry, resulting in substantial economic losses. As a multifactorial disease, pathogen infection and respiratory microbial imbalance are important causative factors in the occurrence and development of BRD. Integrative analyses of 16S rRNA sequencing and metabolomics allow comprehensive identification of the changes in microbiota and metabolism associated with BRD, making it possible to determine which pathogens are responsible for the disease and to develop new therapeutic strategies. In our study, 16S rRNA sequencing and metagenomic analysis were used to describe and compare the composition and diversity of nasal microbes in healthy cattle and cattle with BRD from different farms in Yinchuan, Ningxia, China. We found a significant difference in nasal microbial diversity between diseased and healthy bovines; notably, the relative abundance of Mycoplasma bovis and Pasteurella increased. This indicated that the composition of the microbial community had changed in diseased bovines compared with healthy ones. The data also strongly suggested that the reduced relative abundance of probiotics, including Pasteurellales and Lactobacillales, in diseased samples contributes to the susceptibility to bovine respiratory disease. Furthermore, serum metabolomic analysis showed altered concentrations of metabolites in BRD and that a significant decrease in lactic acid and sarcosine may impair the ability of bovines to generate energy and an immune response to pathogenic bacteria. Based on the correlation analysis between microbial diversity and the metabolome, lactic acid (2TMS) was positively correlated with Gammaproteobacteria and Bacilli and negatively correlated with Mollicutes. In summary, microbial communities and serum metabolites in BRD were characterized by integrative analysis. This study provides a reference for monitoring biomarkers of BRD, which will be critical for the prevention and treatment of BRD in the future.

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“…Especially, recent studies report that BCoV is also considered as a key pathogen associated with respiratory diseases [47][48][49][50][51]. Except for the KOR, other countries have focused on BCoV as a respiratory pathogen rather than as a diarrheal pathogen [52][53][54][55]. Further study is required to explore the prevalence of BCoV by its associations with various clinical symptoms and to identify the genetic characteristics between enteric and respiratory BCoVs circulating in the KOR.…”

Section: Discussionmentioning

confidence: 99%

Genetic Evolution of Bovine Coronavirus Detected in the Republic of Korea

Kim

Cho

Shin

et al. 2021

Preprint

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Bovine coronavirus (BCoV) is associated with severe diarrhea in calves, winter dysentery in adult cattle, and respiratory diseases in cattle. However, there is limited information regarding its molecular characterization in the Republic of Korea (KOR). This study was conducted to investigate the prevalence of BCoV in diarrheic calves, perform global comparison of BCoV genome sequences, and suggest a new nomenclature. A total of 521 fecal samples were collected from diarrheic pre-weaned native Korean calves (age £60 days) from 100 herds in the KOR. The samples were divided into three groups based on age as follows: 1-21 days (n = 433), 21-40 days (n = 64), and 41-60 days (n = 24). The full-length Spike (S) gene was amplified and sequenced. The phylogenetic tree was constructed using the maximum-likelihood method and the evolutionary rates were estimated. BCoV infection was detected in 20 (3.8%) calves by real-time RT-PCR analysis, and nine full-length genome sequences were obtained from the 20 BCoV-positive samples. Genomic comparison analysis showed that these 2019-2020 variants exhibited the highest nucleotide sequence identity (98.6%-99.2%) with that of water deer (Hydropotes inermis) isolates. Phylogenetic analysis of the full genomes of the S gene revealed the following four BCoV groups: G1, classical BCoV strains; G2, 2002 Korean, Japan, Vietnam, Cuba, and USA strains/isolates; G3, European strains/isolates; and G4, Korean isolates (2004 and 2006 Korean isolates, 2010 BCoV-like, 2017 water deer, and 2019-2020 variants). The evolutionary rates accelerated from G1 to G4. This grouping was also closely related to the nucleotide substitution rate. Using molecular clock analysis of the S gene, the most recent common ancestor of each group was estimated to have originated in 1953, 1979, 1986, and 1993, respectively. Recently identified BCoV variants in the KOR are undergoing slow evolution. These findings provide useful information for understanding the molecular characterization of BCoVs. Further research is necessary to conduct recombination analysis to support BCoV evolution.

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

Cited by 8 publications

References 23 publications

Characterization of Winter Dysentery Bovine Coronavirus Isolated from Cattle in Israel

Characterization of Winter Dysentery Bovine Coronavirus Isolated from Cattle in Israel

Integrative Analysis of the Nasal Microbiota and Serum Metabolites in Bovines with Respiratory Disease by 16S rRNA Sequencing and Gas Chromatography/Mass Selective Detector-Based Metabolomics

Genetic Evolution of Bovine Coronavirus Detected in the Republic of Korea

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