Genetic and evolutionary analysis of emerging HoBi-like pestivirus

Guo, Zhiyuan; Lin, Wei; Niu, Lingdi; Shangguan, Haikun; Huang, Chengshi; Zhang, Yannan; Gao, Mingchun

doi:10.1016/j.rvsc.2021.05.008

Cited by 7 publications

(17 citation statements)

References 51 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Additionally, based on ORF analysis, HoBiPeVs revealed a tMRCA of 1942 CE (95% credibility interval, 1800–1998 CE), while the estimated tMRCA derived from individual gene sequences covered the period from 1962 to 1989, with the exception of the N pro (18th century) and E2 (12th century). The studies on evolutionary analyses with regard to the origin and dating of tMRCA of HoBiPeVs have so far been based on either single-gene, 5′-UTR [ 43 ], N pro [ 26 ] or combined datasets of 5′-UTR-N pro -E2 [ 24 ] wherein various estimates of tMRCA were reported. For instance, a previous study [ 24 ] reported a tMRCA of 1880 (HPDs, 1651–1993) based on combined datasets of 5′-UTR, N pro and E2 gene.…”

Section: Discussionmentioning

confidence: 99%

Whole-Genome-Sequence-Based Evolutionary Analyses of HoBi-like Pestiviruses Reveal Insights into Their Origin and Evolutionary History

Kalaiyarasu

Mishra

Subramaniam

et al. 2023

Viruses

View full text Add to dashboard Cite

HoBi-like pestivirus (HoBiPeV), classified under Pestivirus H species, is an emerging cattle pathogen of high economic impact. However, the origin and evolution of HoBiPeV are not very clear due to a lack of full genomic sequences from diverse clades. This study aimed to determine full-genome sequences of HoBiPeV strains of three novel clades (c, d and e) and perform full-genome-based genetic and evolutionary analyses. Bayesian phylogenetic analyses herein confirmed the existence and independent evolution of four main HoBiPeV clades (a, c, d and e) globally, with genetic divergence ranging from 13.0% to 18.2%. Our Bayesian molecular clock estimates revealed that HoBiPeV most likely originated in India, with a dated tMRCA of 1938 (1762–2000), evidencing a more recent origin of HoBiPeV. The evolution rate of HoBiPeV was estimated to be 2.133 × 10−3 subs/site/year at full-genome level but varied widely among individual genes. Selection pressure analyses identified most of the positively selected sites in E2. Additionally, 21.8% of the ORF codon sites were found under strong episodic diversifying selection, providing first evidence of negative selection in HoBiPeV evolution. No recombination event was evident for HoBiPeV-c, d and e strains. These findings provide new insights into HoBiPeV origin and evolutionary history for better understanding the epidemiology and host–pathogen interactions and stimulate vaccine research.

show abstract

Section: Discussionmentioning

confidence: 99%

Whole-Genome-Sequence-Based Evolutionary Analyses of HoBi-like Pestiviruses Reveal Insights into Their Origin and Evolutionary History

Kalaiyarasu

Mishra

Subramaniam

et al. 2023

Viruses

View full text Add to dashboard Cite

show abstract

“…The sequences described in Italy and Brazil are grouped into the same branch, but the sequence described in Asia, also previously classified as subgenotype “a”, is very divergent within this subgroup [ 62 ]. The origin and dispersion of HoBiPeV remain unclear, yet it probably emerged in Asia and subsequently spread to other regions around the world [ 27 , 63 , 64 ]. Previous studies with Bayesian analysis suggest a relatively recent origin for HoBiPeV [ 65 , 66 ].…”

Section: Discussionmentioning

confidence: 99%

“…Notably, HoBiPeV was identified in banked samples, dated 1996, from an outbreak of disease in Brazilian water buffalos, demonstrating the long-term circulation of the virus in the country [ 23 ]. In recent decades, several studies have described the presence of this emerging pestivirus, mainly in cattle from South America [ 24 , 25 , 26 ] and southeast Asia [ 27 ]. In 2011, HoBiPeV was described in an outbreak in southern Italy [ 28 ]; however, until now, it has not been reported in Europe anymore [ 29 ].…”

Section: Introductionmentioning

confidence: 99%

HoBi-like Pestivirus Is Highly Prevalent in Cattle Herds in the Amazon Region (Northern Brazil)

Baumbach

Mósena

Alves

et al. 2023

Viruses

View full text Add to dashboard Cite

Pestiviruses are globally distributed and cause substantial economic losses to the cattle industry. In Brazil, the country with the world’s largest cattle population, pestivirus infections are well described in some regions, such as in the south, where a high frequency of BVDV-2 is described and contrasts with the high prevalence of HoBi-like pestivirus (HoBiPeV) in the northeast. However, there is a lack of information about pestiviruses in the Amazon Region, in northern Brazil, with a cattle population estimated at 55.7 million head, which has a significant impact on the international livestock market. Therefore, this study investigated the seroprevalence and genetic variability of ruminant pestiviruses in 944 bovine serum samples from four states in northern Brazil: Pará (PA), Amapá (AP), Roraima (RR), and Amazonas (AM). Our results showed that 45.4% of the samples were seropositive (19.8% for BVDV-1, 14.1% for BVDV-2, and 20.9% for HoBiPeV). All samples were tested by RT–qPCR, and three were positive and classified as HoBiPeV in a phylogenetic analysis. These serological and molecular results contrast with those from other regions of the world, suggesting that the northern Brazilian states have a high prevalence of all bovine pestiviruses including HoBiPeV.

show abstract

“…The International Committee on Virus Taxonomy (ICTV) classified the Pestivirus genus in the Flaviviridae family in the format Pestivirus A, Pestivirus B, Pestivirus C, and so on [ 1 ]. Pestivirus A–D replaces Bovine viral diarrhea virus-1 (BVDV-1), Bovine viral diarrhea virus-2 (BVDV-2), Classical swine fever virus (CSFV), and Border disease virus (BDV), respectively [ 2 , 3 ]. Due to the cross-reaction of the three viruses in serology, BVDV, CSFV, and BDV, they are closely related in protein structure, antigen, and genetic levels [ 4 ].…”

Section: Introductionmentioning

confidence: 99%

Non-structural proteins of bovine viral diarrhea virus

et al. 2022

View full text Add to dashboard Cite

Bovine viral diarrhea virus (BVDV) belongs to the family Flaviviridae genus pestivirus. The viral genome is a single-stranded, positive-sense RNA that encodes four structural proteins (i.e., C, Erns, E1, and E2) and eight non-structural proteins (NSPs) (i.e., Npro, p7, NS2, NS3, NS4A, NS4B, NS5A, and NS5B). Cattle infected with BVDV exhibit a number of different clinical signs including diarrhea, abortion, and other reproductive disorders which have a serious impact on the cattle industry worldwide. Research on BVDV mainly focuses on its structural protein, however, progress in understanding the functions of the NSPs of BVDV has also been made in recent decades. The knowledge gained on the BVDV non-structural proteins is helpful to more fully understand the viral replication process and the molecular mechanism of viral persistent infection. This review focuses on the functions of BVDV NSPs and provides references for the identification of BVDV, the diagnosis and prevention of Bovine viral diarrhea mucosal disease (BVD-MD), and the development of vaccines.

show abstract

Genetic and evolutionary analysis of emerging HoBi-like pestivirus

Cited by 7 publications

References 51 publications

Whole-Genome-Sequence-Based Evolutionary Analyses of HoBi-like Pestiviruses Reveal Insights into Their Origin and Evolutionary History

Whole-Genome-Sequence-Based Evolutionary Analyses of HoBi-like Pestiviruses Reveal Insights into Their Origin and Evolutionary History

HoBi-like Pestivirus Is Highly Prevalent in Cattle Herds in the Amazon Region (Northern Brazil)

Non-structural proteins of bovine viral diarrhea virus

Contact Info

Product

Resources

About