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Haga IR, Shih BB, Tore G, Polo N, Ribeca P, Gombo-Ochir D, Shura G, Tserenchimed T, Enkhbold B, Purevtseren D, Ulziibat G, Damdinjav B, Yimer L, Bari FD, Gizaw D, Adedeji AJ, Atai RB, Adole JA, Dogonyaro BB, Kumarawadu PL, Batten C, Corla A, Freimanis GL, Tennakoon C, Law A, Lycett S, Downing T, Beard PM. Sequencing and Analysis of Lumpy Skin Disease Virus Whole Genomes Reveals a New Viral Subgroup in West and Central Africa. Viruses 2024; 16:557. [PMID: 38675899 PMCID: PMC11053774 DOI: 10.3390/v16040557] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2023] [Revised: 03/02/2024] [Accepted: 03/05/2024] [Indexed: 04/28/2024] Open
Abstract
Lumpy skin disease virus (LSDV) is a member of the capripoxvirus (CPPV) genus of the Poxviridae family. LSDV is a rapidly emerging, high-consequence pathogen of cattle, recently spreading from Africa and the Middle East into Europe and Asia. We have sequenced the whole genome of historical LSDV isolates from the Pirbright Institute virus archive, and field isolates from recent disease outbreaks in Sri Lanka, Mongolia, Nigeria and Ethiopia. These genome sequences were compared to published genomes and classified into different subgroups. Two subgroups contained vaccine or vaccine-like samples ("Neethling-like" clade 1.1 and "Kenya-like" subgroup, clade 1.2.2). One subgroup was associated with outbreaks of LSD in the Middle East/Europe (clade 1.2.1) and a previously unreported subgroup originated from cases of LSD in west and central Africa (clade 1.2.3). Isolates were also identified that contained a mix of genes from both wildtype and vaccine samples (vaccine-like recombinants, grouped in clade 2). Whole genome sequencing and analysis of LSDV strains isolated from different regions of Africa, Europe and Asia have provided new knowledge of the drivers of LSDV emergence, and will inform future disease control strategies.
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Grants
- BB/R002606/1, BB/R008833/1, BB/X011038/1, BB/X011046/1, BB/CCG2250, BB/CCG1780/1, BBS/E/RL/230002C, BBS/E/RL/230002D, , BBS/E/I/00007039, /1, BB/IDG2250/1, Biotechnology and Biological Sciences Research Council
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Affiliation(s)
- Ismar R. Haga
- The Pirbright Institute, Ash Road, Pirbright, Woking GU24 0NF, UK; (I.R.H.); (N.P.); (P.R.); (C.B.); (G.L.F.); (C.T.); (T.D.)
| | - Barbara B. Shih
- The Roslin Institute, University of Edinburgh, Easter Bush Campus, Roslin, Midlothian EH25 9RG, UK; (B.B.S.); (A.L.); (S.L.)
- Division of Biomedical and Life Sciences, Faculty of Health and Medicine, Lancaster University, Lancaster LA1 4YW, UK
| | - Gessica Tore
- The Pirbright Institute, Ash Road, Pirbright, Woking GU24 0NF, UK; (I.R.H.); (N.P.); (P.R.); (C.B.); (G.L.F.); (C.T.); (T.D.)
| | - Noemi Polo
- The Pirbright Institute, Ash Road, Pirbright, Woking GU24 0NF, UK; (I.R.H.); (N.P.); (P.R.); (C.B.); (G.L.F.); (C.T.); (T.D.)
| | - Paolo Ribeca
- The Pirbright Institute, Ash Road, Pirbright, Woking GU24 0NF, UK; (I.R.H.); (N.P.); (P.R.); (C.B.); (G.L.F.); (C.T.); (T.D.)
- UK Health Security Agency, 61 Colindale Ave, London NW9 5EQ, UK
- NIHR Health Protection Research Unit in Genomics and Enabling Data, Mathematics Institute, Zeeman Builing, University of Warwick, Coventry CV4 7AL, UK
- NIHR Health Protection Research Unit in Gastrointestinal Infections, Ronald Ross Building, University of Liverpool, Liverpool L69 7BE, UK
- Biomathematics and Statistics Scotland, James Maxwell Clerk Building, Peter Guthrie Tait Road, Kings Buildings, Edinburgh EH9 3FD, UK
| | - Delgerzul Gombo-Ochir
- Laboratory of Transboundary Animal Disease Diagnosis and Surveillance, State Central Veterinary Laboratory, Zaisan, Ulaanbaatar 17024, Mongolia; (D.G.-O.); (G.S.); (T.T.); (B.E.); (D.P.); (G.U.)
| | - Gansukh Shura
- Laboratory of Transboundary Animal Disease Diagnosis and Surveillance, State Central Veterinary Laboratory, Zaisan, Ulaanbaatar 17024, Mongolia; (D.G.-O.); (G.S.); (T.T.); (B.E.); (D.P.); (G.U.)
| | - Tsagaan Tserenchimed
- Laboratory of Transboundary Animal Disease Diagnosis and Surveillance, State Central Veterinary Laboratory, Zaisan, Ulaanbaatar 17024, Mongolia; (D.G.-O.); (G.S.); (T.T.); (B.E.); (D.P.); (G.U.)
| | - Bazarragchaa Enkhbold
- Laboratory of Transboundary Animal Disease Diagnosis and Surveillance, State Central Veterinary Laboratory, Zaisan, Ulaanbaatar 17024, Mongolia; (D.G.-O.); (G.S.); (T.T.); (B.E.); (D.P.); (G.U.)
| | - Dulam Purevtseren
- Laboratory of Transboundary Animal Disease Diagnosis and Surveillance, State Central Veterinary Laboratory, Zaisan, Ulaanbaatar 17024, Mongolia; (D.G.-O.); (G.S.); (T.T.); (B.E.); (D.P.); (G.U.)
| | - Gerelmaa Ulziibat
- Laboratory of Transboundary Animal Disease Diagnosis and Surveillance, State Central Veterinary Laboratory, Zaisan, Ulaanbaatar 17024, Mongolia; (D.G.-O.); (G.S.); (T.T.); (B.E.); (D.P.); (G.U.)
| | - Batchuluun Damdinjav
- General Authority for Veterinary Service, Ministry of Food, Agriculture and Light Industry, Ulaanbaatar 13381, Mongolia;
| | - Lama Yimer
- School of Veterinary Medicine, Wollega University, Nekemte P.O. Box 395, Ethiopia;
- College of Veterinary Medicine and Agriculture, Addis Ababa University, Bishoftu P.O. Box 3434, Ethiopia;
| | - Fufa D. Bari
- College of Veterinary Medicine and Agriculture, Addis Ababa University, Bishoftu P.O. Box 3434, Ethiopia;
| | - Daniel Gizaw
- Animal Health Institute (AHI), Sebata P.O. Box 04, Ethiopia;
| | - Adeyinka Jeremy Adedeji
- National Veterinary Research Institute, Vom 930103, Nigeria; (A.J.A.); (R.B.A.); (J.A.A.); (B.B.D.)
| | - Rebecca Bitiyong Atai
- National Veterinary Research Institute, Vom 930103, Nigeria; (A.J.A.); (R.B.A.); (J.A.A.); (B.B.D.)
| | - Jolly Amoche Adole
- National Veterinary Research Institute, Vom 930103, Nigeria; (A.J.A.); (R.B.A.); (J.A.A.); (B.B.D.)
| | | | | | - Carrie Batten
- The Pirbright Institute, Ash Road, Pirbright, Woking GU24 0NF, UK; (I.R.H.); (N.P.); (P.R.); (C.B.); (G.L.F.); (C.T.); (T.D.)
| | - Amanda Corla
- The Pirbright Institute, Ash Road, Pirbright, Woking GU24 0NF, UK; (I.R.H.); (N.P.); (P.R.); (C.B.); (G.L.F.); (C.T.); (T.D.)
| | - Graham L. Freimanis
- The Pirbright Institute, Ash Road, Pirbright, Woking GU24 0NF, UK; (I.R.H.); (N.P.); (P.R.); (C.B.); (G.L.F.); (C.T.); (T.D.)
| | - Chandana Tennakoon
- The Pirbright Institute, Ash Road, Pirbright, Woking GU24 0NF, UK; (I.R.H.); (N.P.); (P.R.); (C.B.); (G.L.F.); (C.T.); (T.D.)
| | - Andy Law
- The Roslin Institute, University of Edinburgh, Easter Bush Campus, Roslin, Midlothian EH25 9RG, UK; (B.B.S.); (A.L.); (S.L.)
| | - Samantha Lycett
- The Roslin Institute, University of Edinburgh, Easter Bush Campus, Roslin, Midlothian EH25 9RG, UK; (B.B.S.); (A.L.); (S.L.)
| | - Tim Downing
- The Pirbright Institute, Ash Road, Pirbright, Woking GU24 0NF, UK; (I.R.H.); (N.P.); (P.R.); (C.B.); (G.L.F.); (C.T.); (T.D.)
| | - Philippa M. Beard
- The Pirbright Institute, Ash Road, Pirbright, Woking GU24 0NF, UK; (I.R.H.); (N.P.); (P.R.); (C.B.); (G.L.F.); (C.T.); (T.D.)
- School of Life Sciences, Keele University, Staffordshire ST5 5BG, UK
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Nikiforov V, Shcherbakov A, Chvala I, Kremenchugskaya S, Korennoy F, Mayorova T, Timina A, Tyulegenov S, Abdrakhmanov S, Berdikulov M, Sainnokhoi T, Gombo-Ochir D, Tserenchimed T, Prokhvatilova L, Sprygin A. Insights into the Molecular Epidemiology of Foot-and-Mouth Disease Virus in Russia, Kazakhstan, and Mongolia in Terms of O/ME-SA/Ind-2001e Sublineage Expansion. Viruses 2023; 15:v15030598. [PMID: 36992307 PMCID: PMC10056362 DOI: 10.3390/v15030598] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2022] [Revised: 02/02/2023] [Accepted: 02/13/2023] [Indexed: 02/24/2023] Open
Abstract
Foot-and-mouth disease (FMD) has long been recognized as a highly contagious, transboundary disease of livestock incurring substantial losses and burdens to animal production and trade across Africa, the Middle East, and Asia. Due to the recent emergence of the O/ME-SA/Ind-2001 lineage globally contributing to the expansion of FMD, molecular epidemiological investigations help in tracing the evolution of foot-and-mouth disease virus (FMDV) across endemic and newly affected regions. In this work, our phylogenetic analysis reveals that the recent FMDV incursions in Russia, Mongolia, and Kazakhstan in 2021–2022 were due to the virus belonging to the O/ME-SA/Ind-2001e sublineage, belonging to the cluster from Cambodian FMDV isolates. The studied isolates varied by 1.0–4.0% at the VP1 nucleotide level. Vaccine matching tests indicated that the vaccination policy in the subregion should be tailored according to the peculiarities of the ongoing epidemiologic situation. The current vaccination should change from such vaccine strains as O1 Manisa (ME–SA), O no 2102/Zabaikalsky/2010 (O/ME-SA/Mya-98) (r1 = 0.05–0.28) to strains that most closely antigenically match the dominant lineage O No. 2212/Primorsky/2014 (O O/ME-SA//Mya-98) and O No. 2311/Zabaikalsky/2016 (O ME-SA/Ind-2001) (r1 = 0.66–1.0).
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Affiliation(s)
| | | | - Ilya Chvala
- Federal Center for Animal Health, Vladimir 600901, Russia
| | | | - Fedor Korennoy
- Federal Center for Animal Health, Vladimir 600901, Russia
| | | | - Anna Timina
- Federal Center for Animal Health, Vladimir 600901, Russia
| | - Samat Tyulegenov
- S. Seifullin Kazakh Agrotechnical University, Astana 010000, Kazakhstan
| | | | | | | | | | | | | | - Alexander Sprygin
- Federal Center for Animal Health, Vladimir 600901, Russia
- Correspondence:
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Sprygin A, Sainnokhoi T, Gombo-Ochir D, Tserenchimed T, Tsolmon A, Byadovskaya O, Ankhanbaatar U, Mazloum A, Korennoy F, Chvala I. Genetic characterization and epidemiological analysis of the first lumpy skin disease virus outbreak in Mongolia, 2021. Transbound Emerg Dis 2022; 69:3664-3672. [PMID: 36219553 DOI: 10.1111/tbed.14736] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2022] [Revised: 09/29/2022] [Accepted: 10/03/2022] [Indexed: 02/04/2023]
Abstract
Novel lumpy skin disease virus (LSDV) strains of recombinant origin are on the rise in South East Asia following the first emergence in 2017, and published evidence demonstrates that such genetic lineages currently dominate the circulation. Mongolia reported first LSD outbreaks in 2021 in a north-eastern region sharing borders with Russia and China. For each of 59 reported LSDV outbreaks, the number of susceptible animals ranged from 8 to 8600 with a median of 572, while the number of infected animals ranged from one to 355 with a median of 14. Phylogenetic inferences revealed a close relationship of LSDV Mongolia/2021 with recombinant vaccine-like LSDV strains from Russia, China, Taiwan, Thailand and Vietnam. These findings support the published data that the circulating strain of LSDV belongs to the dominant recombinant lineage recently established in the region.
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Affiliation(s)
| | | | | | | | | | | | | | - Ali Mazloum
- Federal Center for Animal Health, Vladimir, Russia
| | | | - Ilya Chvala
- Federal Center for Animal Health, Vladimir, Russia
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Sainnokhoi TA, Kováts N, Gelencsér A, Hubai K, Teke G, Pelden B, Tserenchimed T, Erdenechimeg Z, Galsuren J. Characteristics of particle-bound polycyclic aromatic hydrocarbons (PAHs) in indoor PM 2.5 of households in the Southwest part of Ulaanbaatar capital, Mongolia. Environ Monit Assess 2022; 194:665. [PMID: 35951250 PMCID: PMC9372015 DOI: 10.1007/s10661-022-10297-0] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/08/2021] [Accepted: 07/11/2022] [Indexed: 06/15/2023]
Abstract
Air pollution, including PM2.5 concentration in Ulaanbaatar (capital of Mongolia) is a serious matter of concern. As the majority of households use coal in large areas of the city, indoor air quality is also posing a serious risk to human health. This study investigated the concentration of polycyclic aromatic compounds (PAHs) in indoor particulate matter (PM2.5) in 10 non-smoker households. Sampling was conducted in winter of 2018, between 27 January and 09 February. Concentrations of PM2.5 in the indoor air of households ranged between 62.8 and 324.8 µg m-3. Total concentration of PAHs also varied in a relatively wide range, between 46.2 and 175.7 ng m-3. Five-ring PAHs represented a considerably high fraction of total PAHs between 25 and 53%, benzo[b]fluoranthene (BbF) and benzo[a]pyrene (BaP) were the two predominant compounds within five-ring PAHs. Significant correlation was found between indoor and outdoor particulate matter levels in wintertime. Considering individual characteristic PAHs, heavier PAHs homologues (4- to 5-ring and 6-ring PAHs) were detected in all households, which suggested the influence of coal combustion and traffic exhaust. Health risk of children attributed to PAHs inhalation was assessed by taking into account the lifetime-average daily dose (LADD) and corresponding lifetime cancer risk. Lifetime average daily dose for children in only one household were slightly higher than health-based guideline level (1.0 × 10-5), defined by WHO, whereas LADD for adults and children of other households were within acceptable limit. The cancer risks from the exposure of children to air pollutants in all households except HH-3 were found high. In the Vibrio fischeri bioluminescence inhibition assay, according to the toxic unit (TU) values of indoor PM2.5 from ten households, all samples were classified as toxic.
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Affiliation(s)
- Tsend-Ayush Sainnokhoi
- Centre for Natural Sciences, University of Pannonia, Egyetem street 10, Veszprém, 8200, Hungary.
- School of Veterinary Medicine, Mongolian University of Life Sciences, Khan-Uul District, 17042, Ulaanbaatar, Mongolia.
| | - Nora Kováts
- Centre for Natural Sciences, University of Pannonia, Egyetem street 10, Veszprém, 8200, Hungary
| | - András Gelencsér
- Research Institute of Biomolecular and Chemical Engineering, University of Pannonia, Egyetem str. 10, Veszprém, 8200, Hungary
| | - Katalin Hubai
- Centre for Natural Sciences, University of Pannonia, Egyetem street 10, Veszprém, 8200, Hungary
| | - Gábor Teke
- ELGOSCAR-2000 Environmental Technology and Water Management Ltd, 8184, Balatonfűzfő, Hungary
| | - Bolormaa Pelden
- School of Veterinary Medicine, Mongolian University of Life Sciences, Khan-Uul District, 17042, Ulaanbaatar, Mongolia
| | - Tsagaan Tserenchimed
- School of Veterinary Medicine, Mongolian University of Life Sciences, Khan-Uul District, 17042, Ulaanbaatar, Mongolia
| | - Zoljargal Erdenechimeg
- School of Public Health, Mongolian National University of Medical Sciences, Zorig street, Ulaanbaatar, 14210, Mongolia
| | - Jargalsaikhan Galsuren
- School of Public Health, Mongolian National University of Medical Sciences, Zorig street, Ulaanbaatar, 14210, Mongolia
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Sprygin A, Sainnokhoi T, Gombo-Ochir D, Tserenchimed T, Tsolmon A, Ankhanbaatar U, Krotova A, Shumilova I, Shalina K, Prutnikov P, Byadovskaya O, Chvala I. Outbreak of peste des petits ruminants in sheep in Mongolia, 2021. Transbound Emerg Dis 2022; 69:1695-1697. [PMID: 35338752 DOI: 10.1111/tbed.14538] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2022] [Revised: 03/22/2022] [Accepted: 03/22/2022] [Indexed: 12/01/2022]
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