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Coradduzza E, Scarpa F, Rocchigiani AM, Cacciotto C, Lostia G, Fiori MS, Rodriguez Valera Y, De Pascali AM, Brandolini M, Azzena I, Locci C, Casu M, Bechere R, Pintus D, Ligios C, Scagliarini A, Sanna D, Puggioni G. The Global Evolutionary History of Orf Virus in Sheep and Goats Revealed by Whole Genomes Data. Viruses 2024; 16:158. [PMID: 38275968 PMCID: PMC10820850 DOI: 10.3390/v16010158] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2023] [Revised: 01/16/2024] [Accepted: 01/19/2024] [Indexed: 01/27/2024] Open
Abstract
Orf virus (ORFV) belongs to the genus Parapoxvirus (Poxviridae family). It is the causative agent of contagious ecthyma (CE) that is an economically detrimental disease affecting small ruminants globally. Contagious ecthyma outbreaks are usually reported in intensive breeding of sheep and goats but they have also been reported in wildlife species. Notably, ORFV can infect humans, leading to a zoonotic disease. This study aims to elucidate the global evolutionary history of ORFV genomes in sheep and goats, including the first genomes from Central America in the analyses. In comparison to the last study on ORFV whole genomes, the database now includes 11 more sheep and goat genomes, representing an increase of 42%. The analysis of such a broader database made it possible to obtain a fine molecular dating of the coalescent time for ORFV S and G genomes, further highlighting the genetic structuring between sheep and goat genomes and corroborating their emergence in the latter half of 20th century.
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Affiliation(s)
- Elisabetta Coradduzza
- Istituto Zooprofilattico Sperimentale della Sardegna, 07100 Sassari, Italy; (E.C.); (A.M.R.); (G.L.); (M.S.F.); (R.B.); (D.P.); (C.L.); (G.P.)
| | - Fabio Scarpa
- Dipartimento di Scienze Biomediche, Università di Sassari, 07100 Sassari, Italy; (F.S.); (I.A.); (C.L.)
| | - Angela Maria Rocchigiani
- Istituto Zooprofilattico Sperimentale della Sardegna, 07100 Sassari, Italy; (E.C.); (A.M.R.); (G.L.); (M.S.F.); (R.B.); (D.P.); (C.L.); (G.P.)
| | - Carla Cacciotto
- Dipartimento di Medicina Veterinaria, Università di Sassari, 07100 Sassari, Italy; (C.C.); (M.C.)
- Mediterranean Center for Disease Control, 07100 Sassari, Italy
| | - Giada Lostia
- Istituto Zooprofilattico Sperimentale della Sardegna, 07100 Sassari, Italy; (E.C.); (A.M.R.); (G.L.); (M.S.F.); (R.B.); (D.P.); (C.L.); (G.P.)
| | - Mariangela Stefania Fiori
- Istituto Zooprofilattico Sperimentale della Sardegna, 07100 Sassari, Italy; (E.C.); (A.M.R.); (G.L.); (M.S.F.); (R.B.); (D.P.); (C.L.); (G.P.)
| | | | - Alessandra Mistral De Pascali
- Dipartimento di Scienze Mediche e Chirurgiche, Università di Bologna, 40138 Bologna, Italy; (A.M.D.P.); (M.B.); (A.S.)
| | - Martina Brandolini
- Dipartimento di Scienze Mediche e Chirurgiche, Università di Bologna, 40138 Bologna, Italy; (A.M.D.P.); (M.B.); (A.S.)
| | - Ilenia Azzena
- Dipartimento di Scienze Biomediche, Università di Sassari, 07100 Sassari, Italy; (F.S.); (I.A.); (C.L.)
| | - Chiara Locci
- Dipartimento di Scienze Biomediche, Università di Sassari, 07100 Sassari, Italy; (F.S.); (I.A.); (C.L.)
- Dipartimento di Medicina Veterinaria, Università di Sassari, 07100 Sassari, Italy; (C.C.); (M.C.)
| | - Marco Casu
- Dipartimento di Medicina Veterinaria, Università di Sassari, 07100 Sassari, Italy; (C.C.); (M.C.)
| | - Roberto Bechere
- Istituto Zooprofilattico Sperimentale della Sardegna, 07100 Sassari, Italy; (E.C.); (A.M.R.); (G.L.); (M.S.F.); (R.B.); (D.P.); (C.L.); (G.P.)
| | - Davide Pintus
- Istituto Zooprofilattico Sperimentale della Sardegna, 07100 Sassari, Italy; (E.C.); (A.M.R.); (G.L.); (M.S.F.); (R.B.); (D.P.); (C.L.); (G.P.)
| | - Ciriaco Ligios
- Istituto Zooprofilattico Sperimentale della Sardegna, 07100 Sassari, Italy; (E.C.); (A.M.R.); (G.L.); (M.S.F.); (R.B.); (D.P.); (C.L.); (G.P.)
| | - Alessandra Scagliarini
- Dipartimento di Scienze Mediche e Chirurgiche, Università di Bologna, 40138 Bologna, Italy; (A.M.D.P.); (M.B.); (A.S.)
| | - Daria Sanna
- Dipartimento di Scienze Biomediche, Università di Sassari, 07100 Sassari, Italy; (F.S.); (I.A.); (C.L.)
| | - Giantonella Puggioni
- Istituto Zooprofilattico Sperimentale della Sardegna, 07100 Sassari, Italy; (E.C.); (A.M.R.); (G.L.); (M.S.F.); (R.B.); (D.P.); (C.L.); (G.P.)
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2
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Ghazaleh RA, Al-Sawalhe M, Odeh IA, El Ibrahim J, Al-Turman B, Makhamreh J. Host range, severity and trans boundary transmission of Orf virus (ORFV). INFECTION, GENETICS AND EVOLUTION : JOURNAL OF MOLECULAR EPIDEMIOLOGY AND EVOLUTIONARY GENETICS IN INFECTIOUS DISEASES 2023; 112:105448. [PMID: 37217030 DOI: 10.1016/j.meegid.2023.105448] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/08/2023] [Revised: 04/03/2023] [Accepted: 04/30/2023] [Indexed: 05/24/2023]
Abstract
Contagious ecthyma in small ruminants is a zoonotic disease caused by Orf virus (ORFV) in the genus Parapoxvirus that can be deadly to its natural hosts. It causes significant losses worldwide, and commonly infects humans. However, the literature about its comparative severity in sheep and goat hosts is misleading; and while contagious ecthyma has been shown to occur in camels and transmit to humans, there is confusion as to whether ORFV is responsible. Camels are important from a 'One Health' perspective as they have been implicated as a reservoir host for the virus causing Middle East Respiratory Syndrome (MERS), which has a case fatality rate of 35% in humans. We compared ORFV gene sequences and mortality data from the West Bank in Palestine, where ORFV has not been reported previously, with data from the region. Surprisingly, we found that infections of camels that had been attributed to ORFV were more closely related to a different member of the genus Parapoxvirus. Two Middle East ORFVs isolated from humans were unrelated and sat alongside sheep and goat derived sequences on two distinct ORFV lineages of a maximum likelihood B2L gene tree. One of the viral lineages bifurcated to produce a monophyletic group of goat-derived ORFVs characterized uniquely by a glycine at amino acid reside 249. We found that serine is the ancestral allele shared between ORFV infections of sheep and also two closely related Parapoxviruses (PCPV and CCEV), indicating that the glycine allele represents a more recent shift in virus host range adaptation to goats. Furthermore, and contrary to some reports that ORFV is more severe in goats than in sheep, we observed median mortality of up to 24.5% in sheep, but none in goats. We also identified trans-boundary spread of ORFV between the West Bank and Israel.
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Affiliation(s)
- Robin Abu Ghazaleh
- Palestine-Korea Biotechnology Research Center, Palestine Polytechnic University, P.O. Box 198, Hebron, Palestine.
| | - Mohammed Al-Sawalhe
- Palestine-Korea Biotechnology Research Center, Palestine Polytechnic University, P.O. Box 198, Hebron, Palestine
| | - Insaf Abu Odeh
- Palestine-Korea Biotechnology Research Center, Palestine Polytechnic University, P.O. Box 198, Hebron, Palestine
| | - Jehad El Ibrahim
- Palestine-Korea Biotechnology Research Center, Palestine Polytechnic University, P.O. Box 198, Hebron, Palestine; National Agricultural Research Center (NARC), Jenin, Palestine
| | - Basem Al-Turman
- Palestine-Korea Biotechnology Research Center, Palestine Polytechnic University, P.O. Box 198, Hebron, Palestine
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Dalton CS, Workentine ML, Leclerc LM, Kutz S, van der Meer F. Next-generation sequencing approach to investigate genome variability of Parapoxvirus in Canadian muskoxen (Ovibos moschatus). INFECTION, GENETICS AND EVOLUTION : JOURNAL OF MOLECULAR EPIDEMIOLOGY AND EVOLUTIONARY GENETICS IN INFECTIOUS DISEASES 2023; 109:105414. [PMID: 36775047 DOI: 10.1016/j.meegid.2023.105414] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/16/2022] [Revised: 01/20/2023] [Accepted: 02/08/2023] [Indexed: 02/12/2023]
Abstract
In 2016, the first orf virus, a double-stranded DNA (dsDNA) virus of the genus parapoxvirus, from a muskox was isolated on Victoria Island, Nunavut (NU), Canada. We used deep sequencing on DNA extracted from orf virus-positive tissues from wild muskoxen from locations on Victoria Island and the adjacent mainland. Orf virus sequence reads derived from four samples were nearly identical. The consensus sequences generated from pooled reads of MxOV comprises of a large contiguous sequence (contig) of 131,759 bp and a smaller right terminal contig of 3552 bp, containing all coding sequences identified as Parapoxvirus. Individual gene comparisons reveal that MxOV shares genetic characteristics with reference strains from both sheep and goat origin. Recombination analysis using Bootscan, MAXCHI, GENECONV, CHIMAERA, SISCAN, and RDP algorithms within the RDP4 software predicted recombination events in two virulence factors, and a large 3000 bp segment of the MxOV genome. Partial B2L nucleotide sequences from strains around the world and other North American isolates were compared to MxOV using MUSCLE alignments and RAxML phylogenetic trees. MxOV was identical to our previously characterized isolate, and shared similarity with orf virus isolated from sheep and goats. The phylogenetic grouping of partial B2L nucleotide sequences did not follow the sample geographic distribution. More full genomes of orf virus, or at least full B2L gene squences, in wildlife are needed especially in North America to better understand the epidemiology of the disease in muskoxen.
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Affiliation(s)
- Chimone S Dalton
- Department of Ecosystem & Public Health, Faculty of Veterinary Medicine, University of Calgary, 3280 Hospital Drive NW, Calgary, AB T2N 4Z6, Canada.
| | - Matthew L Workentine
- Faculty of Veterinary Medicine, University of Calgary, 3280 Hospital Drive NW, Calgary, AB T2N 4Z6, Canada
| | - Lisa-Marie Leclerc
- Department of Environment, Government of Nunavut, P.O. 377, Kugluktuk, NU X0B 0E0, Canada
| | - Susan Kutz
- Department of Ecosystem & Public Health, Faculty of Veterinary Medicine, University of Calgary, 3280 Hospital Drive NW, Calgary, AB T2N 4Z6, Canada
| | - Frank van der Meer
- Department of Ecosystem & Public Health, Faculty of Veterinary Medicine, University of Calgary, 3280 Hospital Drive NW, Calgary, AB T2N 4Z6, Canada
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Kumar S, Kumar GS, Maitra SS, Malý P, Bharadwaj S, Sharma P, Dwivedi VD. Viral informatics: bioinformatics-based solution for managing viral infections. Brief Bioinform 2022; 23:6659740. [PMID: 35947964 DOI: 10.1093/bib/bbac326] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2022] [Revised: 06/26/2022] [Accepted: 07/18/2022] [Indexed: 11/13/2022] Open
Abstract
Several new viral infections have emerged in the human population and establishing as global pandemics. With advancements in translation research, the scientific community has developed potential therapeutics to eradicate or control certain viral infections, such as smallpox and polio, responsible for billions of disabilities and deaths in the past. Unfortunately, some viral infections, such as dengue virus (DENV) and human immunodeficiency virus-1 (HIV-1), are still prevailing due to a lack of specific therapeutics, while new pathogenic viral strains or variants are emerging because of high genetic recombination or cross-species transmission. Consequently, to combat the emerging viral infections, bioinformatics-based potential strategies have been developed for viral characterization and developing new effective therapeutics for their eradication or management. This review attempts to provide a single platform for the available wide range of bioinformatics-based approaches, including bioinformatics methods for the identification and management of emerging or evolved viral strains, genome analysis concerning the pathogenicity and epidemiological analysis, computational methods for designing the viral therapeutics, and consolidated information in the form of databases against the known pathogenic viruses. This enriched review of the generally applicable viral informatics approaches aims to provide an overview of available resources capable of carrying out the desired task and may be utilized to expand additional strategies to improve the quality of translation viral informatics research.
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Affiliation(s)
- Sanjay Kumar
- School of Biotechnology, Jawaharlal Nehru University, New Delhi, India.,Center for Bioinformatics, Computational and Systems Biology, Pathfinder Research and Training Foundation, Greater Noida, India
| | - Geethu S Kumar
- Department of Life Science, School of Basic Science and Research, Sharda University, Greater Noida, Uttar Pradesh, India.,Center for Bioinformatics, Computational and Systems Biology, Pathfinder Research and Training Foundation, Greater Noida, India
| | | | - Petr Malý
- Laboratory of Ligand Engineering, Institute of Biotechnology of the Czech Academy of Sciences v.v.i., BIOCEV Research Center, Vestec, Czech Republic
| | - Shiv Bharadwaj
- Laboratory of Ligand Engineering, Institute of Biotechnology of the Czech Academy of Sciences v.v.i., BIOCEV Research Center, Vestec, Czech Republic
| | - Pradeep Sharma
- Department of Biophysics, All India Institute of Medical Sciences, New Delhi, India
| | - Vivek Dhar Dwivedi
- Center for Bioinformatics, Computational and Systems Biology, Pathfinder Research and Training Foundation, Greater Noida, India.,Institute of Advanced Materials, IAAM, 59053 Ulrika, Sweden
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Mangga HK, Bala JA, Balakrishnan KN, Bukar AM, Lawan Z, Gambo A, Jesse FFA, Noordin MM, Mohd-Azmi ML. Genome-Wide Analysis and Molecular Characterization of Orf Virus Strain UPM/HSN-20 Isolated From Goat in Malaysia. Front Microbiol 2022; 13:877149. [PMID: 35898905 PMCID: PMC9309513 DOI: 10.3389/fmicb.2022.877149] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2022] [Accepted: 06/10/2022] [Indexed: 12/03/2022] Open
Abstract
Contagious ecthyma commonly known as Orf is a globally important, highly contagious zoonotic, transboundary disease that affects domestic and wild ruminants. The disease is of great economic significance causing an immense impact on animal health, welfare, productivity, and trade. Detailed analysis of the viral genome is crucial to further elucidate the molecular mechanism of Orf virus (ORFV) pathogenesis. In the present study, a confluent monolayer of lamb testicle cells was infected with the processed scab sample obtained from an infected goat. The presence of the virus was confirmed using polymerase chain reaction and electron microscopy, while its genome was sequenced using next-generation sequencing technology. The genome sequence of Malaysian ORFV strain UPM/HSN-20 was found to contain 132,124 bp with a G + C content of 63.7%. The homology analysis indicates that UPM/HSN-20 has a high level of identity 97.3–99.0% with the other reference ORFV strain. Phylogenetic analysis revealed that ORFV strain UPM/HSN-20 is genetically more closely related to ORFV strain XY and NP from China. The availability of the genome-wide analysis of ORFV UPM/HSN-20 strain from Malaysia will serve as a good platform for further understanding of genetic diversity, ORFV infection, and strategic development for control measures.
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Affiliation(s)
- Hassana Kyari Mangga
- Virology Unit, Department of Pathology and Microbiology, Faculty of Veterinary Medicine, Universiti Putra Malaysia, Serdang, Malaysia
- Department of Veterinary Pathology and Microbiology, Faculty of Veterinary Medicine, Universiti Putra Malaysia, Serdang, Malaysia
- Department of Microbiology, Faculty of Science, University of Maiduguri, Maiduguri, Nigeria
- *Correspondence: Hassana Kyari Mangga,
| | - Jamilu Abubakar Bala
- Virology Unit, Department of Pathology and Microbiology, Faculty of Veterinary Medicine, Universiti Putra Malaysia, Serdang, Malaysia
- Department of Medical Laboratory Sciences, Faculty of Allied Health Sciences, Bayero University Kano, Kano, Nigeria
| | - Krishnan Nair Balakrishnan
- Virology Unit, Department of Pathology and Microbiology, Faculty of Veterinary Medicine, Universiti Putra Malaysia, Serdang, Malaysia
| | - Alhaji Modu Bukar
- Virology Unit, Department of Pathology and Microbiology, Faculty of Veterinary Medicine, Universiti Putra Malaysia, Serdang, Malaysia
- Department of Science Laboratory Technology, Ramat Polytechnic Maiduguri, Maiduguri, Nigeria
| | - Zaharaddeen Lawan
- Department of Agricultural Technology, College of Agriculture, Hussaini Adamu Federal Polytechnic, Kazaure, Nigeria
| | - Auwal Gambo
- Virology Unit, Department of Pathology and Microbiology, Faculty of Veterinary Medicine, Universiti Putra Malaysia, Serdang, Malaysia
- Department of Microbiology, Faculty of Science, Usmanu Danfodiyo University Sokoto, Sokoto, Nigeria
| | - Faez Firdaus Abdullah Jesse
- Department of Veterinary Clinical Studies, Faculty of Veterinary Medicine, Universiti Putra Malaysia, Serdang, Malaysia
| | - Mustapha M. Noordin
- Department of Veterinary Pathology and Microbiology, Faculty of Veterinary Medicine, Universiti Putra Malaysia, Serdang, Malaysia
| | - Mohd-Lila Mohd-Azmi
- Virology Unit, Department of Pathology and Microbiology, Faculty of Veterinary Medicine, Universiti Putra Malaysia, Serdang, Malaysia
- Mohd-Lila Mohd-Azmi,
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Sahu BP, Majee P, Singh RR, Sahoo N, Nayak D. Recombination drives the emergence of orf virus diversity: evidence from the first complete genome sequence of an Indian orf virus isolate and comparative genomic analysis. Arch Virol 2022; 167:1571-1576. [PMID: 35546377 PMCID: PMC9094603 DOI: 10.1007/s00705-022-05443-5] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2021] [Accepted: 03/07/2022] [Indexed: 11/02/2022]
Abstract
Contagious pustular dermatitis is a disease that primarily infects small ruminants and possesses zoonotic potential. It is caused by orf virus (ORFV), a member of the genus Parapoxvirus. In this study, we evaluated an ORFV outbreak in goats in Madhya Pradesh, a state in central India, during 2017. The transboundary potential of this virus was evaluated by constructing phylogenetic trees. The complete genome sequence of an ORFV isolate named Ind/MP/17 was found to be 139,807 bp in length with 63.7% GC content and 132 open reading frames (ORFs) flanked by 3,910-bp inverted terminal repeats (ITRs). An investigation into evolutionary parameters such as selection pressure (θ = dN/dS) and nucleotide diversity (π) demonstrated that ORFV has undergone purifying selection. A total of 40 recombination events were identified, 21 of which were evident in the Ind/MP/17 genome, indicating its ability to generate new variants.
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Affiliation(s)
- Basanta Pravas Sahu
- Department of Biological Sciences and Biomedical Engineering, Indian Institute of Technology Indore, Indore, MP, 453331, India
| | - Prativa Majee
- Department of Biological Sciences and Biomedical Engineering, Indian Institute of Technology Indore, Indore, MP, 453331, India
| | - Ravi Raj Singh
- Department of Biological Sciences and Biomedical Engineering, Indian Institute of Technology Indore, Indore, MP, 453331, India
| | - Niranjana Sahoo
- Centre for Wildlife Health, College of Veterinary Sciences and Animal Husbandry, Bhubaneswar, 751030, India
| | - Debasis Nayak
- Department of Biological Science, Indian Institute of Science Education and Research (IISER) Bhopal, Bhopal Bypass Road, Bhauri, Madhya Pradesh, 462066, India.
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Hirano S, Soga Y, Kuno Y, Doai S, Tokutake S, Shibahara T, Indo T. Molecular phylogenetic analysis of bovine papular stomatitis viruses detected in Saga, Japan. J Vet Med Sci 2021; 83:1489-1494. [PMID: 34334509 PMCID: PMC8498829 DOI: 10.1292/jvms.20-0624] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
Abstract
In this study, we performed a molecular phylogenetic analysis of six bovine papular stomatitis virus (BPSV) field strains detected from Japanese beef calves kept on a farm in Saga prefecture, a southwest part of Japan, from 2017 to 2020. The phylogenetic analysis based on a partial B2L gene (554-nt) showed that these field strains were divided into two lineages, a lineage (A-lineage) constructed by a Saga strain and strains obtained from various regions of Japan and the world, and other lineage (B-lineage) constructed by five Saga strains and strains obtained from France, USA and Iwate prefecture (a north part of Japan). Furthermore, a Saga field strain named BPSV_SAGAbv2 and strains obtained from USA and Iwate prefecture belonged to a sub-lineage blanched from B-lineage. This is the first report elucidating molecular epidemiological characters of field BPSVs obtained from Saga prefecture. The existence of the multiple lineages was thought to be related to a history of calf introduction from various regions of Japan into Saga prefecture.
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Affiliation(s)
- Shinji Hirano
- Saga Prefectural Central Livestock Hygiene Service Center
| | - Yasufumi Soga
- Saga Prefectural Central Livestock Hygiene Service Center
| | - Yuri Kuno
- Saga Prefectural Central Livestock Hygiene Service Center.,National Institute of Animal Health, National Agriculture and Food Research Organization
| | - Satomi Doai
- National Institute of Animal Health, National Agriculture and Food Research Organization.,Tochigi Prefecture Kenou Livestock Hygiene Service Center
| | - Shinya Tokutake
- National Institute of Animal Health, National Agriculture and Food Research Organization.,Nagano Prefectural Matsumoto Livestock Hygiene Service Center
| | - Tomoyuki Shibahara
- National Institute of Animal Health, National Agriculture and Food Research Organization.,Department of Veterinary Science, Graduate School of Life and Environmental Science, Osaka Prefecture University
| | - Tadahiro Indo
- Saga Prefectural Central Livestock Hygiene Service Center
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Yao X, Pang M, Wang T, Chen X, Tang X, Chang J, Chen D, Ma W. Genomic Features and Evolution of the Parapoxvirus during the Past Two Decades. Pathogens 2020; 9:E888. [PMID: 33120928 PMCID: PMC7694016 DOI: 10.3390/pathogens9110888] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2020] [Revised: 10/21/2020] [Accepted: 10/24/2020] [Indexed: 11/23/2022] Open
Abstract
Parapoxvirus (PPV) has been identified in some mammals and poses a great threat to both the livestock production and public health. However, the prevalence and evolution of this virus are still not fully understood. Here, we performed an in silico analysis to investigate the genomic features and evolution of PPVs. We noticed that although there were significant differences of GC contents between orf virus (ORFV) and other three species of PPVs, all PPVs showed almost identical nucleotide bias, that is GC richness. The structural analysis of PPV genomes showed the divergence of different PPV species, which may be due to the specific adaptation to their natural hosts. Additionally, we estimated the phylogenetic diversity of seven different genes of PPV. According to all available sequences, our results suggested that during 2010-2018, ORFV was the dominant virus species under the selective pressure of the optimal gene patterns. Furthermore, we found the substitution rates ranged from 3.56 × 10-5 to 4.21 × 10-4 in different PPV segments, and the PPV VIR gene evolved at the highest substitution rate. In these seven protein-coding regions, purifying selection was the major evolutionary pressure, while the GIF and VIR genes suffered the greatest positive selection pressure. These results may provide useful knowledge on the virus genetic evolution from a new perspective which could help to create prevention and control strategies.
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Affiliation(s)
- Xiaoting Yao
- College of Veterinary Medicine, Northwest A&F University, Yangling 712100, China; (X.Y.); (M.P.); (T.W.); (X.C.); (X.T.)
| | - Ming Pang
- College of Veterinary Medicine, Northwest A&F University, Yangling 712100, China; (X.Y.); (M.P.); (T.W.); (X.C.); (X.T.)
| | - Tianxing Wang
- College of Veterinary Medicine, Northwest A&F University, Yangling 712100, China; (X.Y.); (M.P.); (T.W.); (X.C.); (X.T.)
| | - Xi Chen
- College of Veterinary Medicine, Northwest A&F University, Yangling 712100, China; (X.Y.); (M.P.); (T.W.); (X.C.); (X.T.)
| | - Xidian Tang
- College of Veterinary Medicine, Northwest A&F University, Yangling 712100, China; (X.Y.); (M.P.); (T.W.); (X.C.); (X.T.)
| | - Jianjun Chang
- College of Agriculture and Animal Husbandry, Qinghai University, Xining 810016, China;
- State Key Laboratory of Plateau Ecology and Agriculture, Qinghai University, Xining 810016, China
| | - Dekun Chen
- College of Veterinary Medicine, Northwest A&F University, Yangling 712100, China; (X.Y.); (M.P.); (T.W.); (X.C.); (X.T.)
| | - Wentao Ma
- College of Veterinary Medicine, Northwest A&F University, Yangling 712100, China; (X.Y.); (M.P.); (T.W.); (X.C.); (X.T.)
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9
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Ebling R, Martins B, Jardim JC, Flores MM, Diel DG, Weiblen R, Flores EF. Late development of pustular, erosive lesions in the muzzle of calves inoculated with Pseudocowpox virus. Microb Pathog 2020; 143:104122. [PMID: 32169495 DOI: 10.1016/j.micpath.2020.104122] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2019] [Revised: 02/21/2020] [Accepted: 03/06/2020] [Indexed: 10/24/2022]
Abstract
We studied the pathogenesis of Pseudocowpox virus (PCPV), a zoonotic parapoxvirus associated with mucocutaneous lesions in cattle. Inoculation of calves with PCPV isolate SD 76-65 intranasally (n = 6) or transdermally in the muzzle (n = 2) resulted in virus replication and shedding up to day 13 post-infection (pi). No local or systemic signs were observed in inoculated calves up to day 20pi, when the clinical monitoring was discontinued. However, from days 28-34 pi, seven (7/8) inoculated calves underwent an asynchronous clinical course characterized by development of a few (one or two) to countless papulo-pustular, erosive-fibrinous and scabby lesions in the muzzle, in some cases extending to the lips and gingiva. In some animals, the lesions coalesced, forming extensive fibrinotic/necrotic and scabby plaques covering almost entirely the muzzle. The clinical course lasted 8-15 days and spontaneously subsided after day 42pi. Infectious virus and/or viral DNA were detected in swabs collected from lesions of 5/8 animals between days 34 and 42pi. Histological examination of fragments collected from the muzzle lesions of two affected calves (day 36pi) revealed marked epidermal hyperplasia and severe orthokeratotic and parakeratotic hyperkeratosis, covered by thick scabs. The epidermis showed multifocal areas of keratinocyte coalescing necrosis and mild multifocal vacuolar degeneration. Sera of inoculated calves at 50pi showed partial virus neutralization at low dilutions, demonstrating seroconversion. The delayed and severe clinical course associated with virus persistence in lesions are novel findings and contribute for the understanding of PCPV pathogenesis.
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Affiliation(s)
- R Ebling
- Virology Section, Department of Preventive Veterinary Medicine, Federal University of Santa Maria, RS, Brazil; Programa de Pós-graduação Em Medicina Veterinária, UFSM, Brazil
| | - B Martins
- Virology Section, Department of Preventive Veterinary Medicine, Federal University of Santa Maria, RS, Brazil; Programa de Pós-graduação Em Medicina Veterinária, UFSM, Brazil
| | - J C Jardim
- Virology Section, Department of Preventive Veterinary Medicine, Federal University of Santa Maria, RS, Brazil
| | - M M Flores
- Veterinary Pathology Laboratory, Federal University of Santa Maria, Brazil
| | - D G Diel
- Department of Population Medicine and Diagnostic Sciences, Animal Health Diagnostic Center, College of Veterinary Medicine, Cornell University, Ithaca, NY, USA
| | - R Weiblen
- Virology Section, Department of Preventive Veterinary Medicine, Federal University of Santa Maria, RS, Brazil
| | - E F Flores
- Virology Section, Department of Preventive Veterinary Medicine, Federal University of Santa Maria, RS, Brazil.
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Andreani J, Fongue J, Bou Khalil JY, David L, Mougari S, Le Bideau M, Abrahão J, Berbis P, La Scola B. Human Infection with Orf Virus and Description of Its Whole Genome, France, 2017. Emerg Infect Dis 2019; 25:2197-2204. [PMID: 31742503 PMCID: PMC6874271 DOI: 10.3201/eid2512.181513] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022] Open
Abstract
Zoonotic transmission of parapoxvirus from animals to humans has been reported; clinical manifestations are skin lesions on the fingers and hands after contact with infected animals. We report a human infection clinically suspected as being ecthyma contagiosum. The patient, a 65-year-old woman, had 3 nodules on her hands. She reported contact with a sheep during the Aïd-el-Fitr festival in France during 2017. We isolated the parapoxvirus orf virus from these nodules by using a nonconventional cell and sequenced the orf genome. We identified a novel orf virus genome and compared it with genomes of other orf viruses. More research is needed on the genus Parapoxvirus to understand worldwide distribution of and infection by orf virus, especially transmission between goats and sheep.
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