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Duran-Yelken S, Alkan F. Molecular analysis of the env, LTR, and pX regions of bovine leukemia virus in dairy cattle of Türkiye. Virus Genes 2024:10.1007/s11262-024-02058-7. [PMID: 38355991 DOI: 10.1007/s11262-024-02058-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2023] [Accepted: 01/28/2024] [Indexed: 02/16/2024]
Abstract
Bovine leukemia virus is a retrovirus that causes enzootic bovine leukosis and is associated with global economic losses in the livestock industry. The aim of this study was to investigate the genotype determination of BLVs from cattle housed in 6 different farms in Türkiye and the characterization of their LTR and pX (tax, rex, R3, and G4 gene) regions. For this purpose, blood samples from 48 cattle infected with BLV were used. The phylogenetic analysis based on the env gene sequences revealed that all BLVs were clustered in genotype 1 (G1), and the sequences of the LTR (n = 48) and the pX region (n = 33) of BLVs were obtained. Also, analysis of these nucleic acid and amino acid sequences allowed assessments similar to those reported in earlier studies to be relevant to transactivation and pathogenesis. This study reports the molecular analysis of the LTR and pX region of BLVs in Türkiye for the first time.
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Affiliation(s)
- Selda Duran-Yelken
- Department of Virology, Faculty of Veterinary Medicine, Kastamonu University, Kastamonu, Turkey.
| | - Feray Alkan
- Department of Virology, Faculty of Veterinary Medicine, Ankara University, Ankara, Turkey
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Pavliscak LA, Nirmala J, Singh VK, Sporer KRB, Taxis TM, Kumar P, Goyal SM, Mor SK, Schroeder DC, Wells SJ, Droscha CJ. Tracing Viral Transmission and Evolution of Bovine Leukemia Virus through Long Read Oxford Nanopore Sequencing of the Proviral Genome. Pathogens 2021; 10:1191. [PMID: 34578223 PMCID: PMC8470207 DOI: 10.3390/pathogens10091191] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2021] [Revised: 08/20/2021] [Accepted: 09/02/2021] [Indexed: 11/16/2022] Open
Abstract
Bovine leukemia virus (BLV) causes Enzootic Bovine Leukosis (EBL), a persistent life-long disease resulting in immune dysfunction and shortened lifespan in infected cattle, severely impacting the profitability of the US dairy industry. Our group has found that 94% of dairy farms in the United States are infected with BLV with an average in-herd prevalence of 46%. This is partly due to the lack of clinical presentation during the early stages of primary infection and the elusive nature of BLV transmission. This study sought to validate a near-complete genomic sequencing approach for reliability and accuracy before determining its efficacy in characterizing the sequence identity of BLV proviral genomes collected from a pilot study made up of 14 animals from one commercial dairy herd. These BLV-infected animals were comprised of seven adult dam/daughter pairs that tested positive by ELISA and qPCR. The results demonstrate sequence identity or divergence of the BLV genome from the same samples tested in two independent laboratories, suggesting both vertical and horizontal transmission in this dairy herd. This study supports the use of Oxford Nanopore sequencing for the identification of viral SNPs that can be used for retrospective genetic contact tracing of BLV transmission.
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Affiliation(s)
| | - Jayaveeramuthu Nirmala
- Veterinary Diagnostic Laboratory, College of Veterinary Medicine, University of Minnesota, St. Paul, MN 55108, USA; (J.N.); (V.K.S.); (S.M.G.); (S.K.M.)
- Department of Veterinary Population Medicine, University of Minnesota, St. Paul, MN 55108, USA; (P.K.); (S.J.W.)
| | - Vikash K. Singh
- Veterinary Diagnostic Laboratory, College of Veterinary Medicine, University of Minnesota, St. Paul, MN 55108, USA; (J.N.); (V.K.S.); (S.M.G.); (S.K.M.)
| | | | - Tasia M. Taxis
- Department of Large Animal Clinical Science, College of Veterinary Medicine, Michigan State University, East Lansing, MI 48824, USA;
| | - Pawan Kumar
- Department of Veterinary Population Medicine, University of Minnesota, St. Paul, MN 55108, USA; (P.K.); (S.J.W.)
| | - Sagar M. Goyal
- Veterinary Diagnostic Laboratory, College of Veterinary Medicine, University of Minnesota, St. Paul, MN 55108, USA; (J.N.); (V.K.S.); (S.M.G.); (S.K.M.)
| | - Sunil Kumar Mor
- Veterinary Diagnostic Laboratory, College of Veterinary Medicine, University of Minnesota, St. Paul, MN 55108, USA; (J.N.); (V.K.S.); (S.M.G.); (S.K.M.)
- Department of Veterinary Population Medicine, University of Minnesota, St. Paul, MN 55108, USA; (P.K.); (S.J.W.)
| | - Declan C. Schroeder
- Department of Veterinary Population Medicine, University of Minnesota, St. Paul, MN 55108, USA; (P.K.); (S.J.W.)
- School of Biological Sciences, University of Reading, Reading RG6 6AS, UK
| | - Scott J. Wells
- Department of Veterinary Population Medicine, University of Minnesota, St. Paul, MN 55108, USA; (P.K.); (S.J.W.)
| | - Casey J. Droscha
- CentralStar Cooperative, Lansing, MI 48910, USA; (L.A.P.); (K.R.B.S.)
- Department of Large Animal Clinical Science, College of Veterinary Medicine, Michigan State University, East Lansing, MI 48824, USA;
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Kazemimanesh M, Madadgar O, Steinbach F, Choudhury B, Azadmanesh K. Detection and molecular characterization of bovine leukemia virus in various regions of Iran. J Gen Virol 2019; 100:1315-1327. [PMID: 31348000 DOI: 10.1099/jgv.0.001303] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Purpose. Bovine leukemia virus (BLV) infects cattle worldwide, imposing an economic impact on the dairy cattle industry. The purpose of this study was to evaluate the molecular epidemiology of BLV in Iran.Methodology. Blood samples taken from 280 cows aged over 2 years old from 13 provinces of Iran were used for leukocyte count and blocking ELISA. Genomic DNA was extracted from the peripheral blood leukocytes of BLV-infected samples and fetal lamb kidney cells to perform PCR of partial env, rex and tax genes and long-terminal-repeat region. The PCR products were sequenced, the phylogenetic tree of each gene was constructed, and nucleotide and amino acid sequence pair distances were calculated.Results. The frequency of BLV infection was 32.8 % among animals and was 80 % among provinces. In BLV seropositive animals, the rate of persistent lymphocytosis was 36.9 %. The constructed phylogenetic trees showed the presence of two BLV genotypes (1 and 4) in Iranian strains. As previous studies, our results showed that the env gene was more variable than previously thought, the Rex protein could withstand more amino acid changes compared to the Tax protein, and no significant differences were observed in average changes of the nucleotide of these genes between clinical stages.Conclusions. Our data indicates an increase in the frequency of this infection in Iran. This is the first study report of the presence of BLV genotype 4 in Iranian farms. These findings may have an important role in the control and prevention of BLV infection in Iran and other countries.
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Affiliation(s)
| | - Omid Madadgar
- Department of Microbiology and Molecular Genetics, Michigan State University, East Lansing, MI, USA.,Department of Microbiology, Faculty of Veterinary Medicine, University of Tehran, Tehran, Iran
| | - Falko Steinbach
- Virology Department, Animal and Plant Health Agency, Addlestone, UK
| | - Bhudipa Choudhury
- OIE Reference Laboratory for EBL, Department of Virology, Animal and Plant Health Agency, Weybridge, UK
| | - Kayhan Azadmanesh
- Department of Molecular Virology, Pasteur Institute of Iran, Tehran, Iran
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Forti K, Rizzo G, Cagiola M, Ferrante G, Marini C, Feliziani F, Pezzotti G, De Giuseppe A. Identification of a novel overlapping sequential E epitope (E′) on the bovine leukaemia virus SU glycoprotein and analysis of immunological data. Vet Microbiol 2014; 172:157-67. [DOI: 10.1016/j.vetmic.2014.05.016] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2013] [Revised: 01/27/2014] [Accepted: 05/07/2014] [Indexed: 10/25/2022]
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Panei CJ, Serena MS, Metz GE, Bravi ME, González ET, Echeverría MG. Analysis of the pX region of bovine leukemia virus in different clinical stages of Enzootic Bovine Leukemia in Argentine Holstein cattle. Virus Res 2013; 171:97-102. [DOI: 10.1016/j.virusres.2012.08.001] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2012] [Revised: 07/31/2012] [Accepted: 08/06/2012] [Indexed: 11/15/2022]
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Gillet N, Florins A, Boxus M, Burteau C, Nigro A, Vandermeers F, Balon H, Bouzar AB, Defoiche J, Burny A, Reichert M, Kettmann R, Willems L. Mechanisms of leukemogenesis induced by bovine leukemia virus: prospects for novel anti-retroviral therapies in human. Retrovirology 2007; 4:18. [PMID: 17362524 PMCID: PMC1839114 DOI: 10.1186/1742-4690-4-18] [Citation(s) in RCA: 242] [Impact Index Per Article: 14.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/04/2007] [Accepted: 03/16/2007] [Indexed: 12/15/2022] Open
Abstract
In 1871, the observation of yellowish nodules in the enlarged spleen of a cow was considered to be the first reported case of bovine leukemia. The etiological agent of this lymphoproliferative disease, bovine leukemia virus (BLV), belongs to the deltaretrovirus genus which also includes the related human T-lymphotropic virus type 1 (HTLV-1). This review summarizes current knowledge of this viral system, which is important as a model for leukemogenesis. Recently, the BLV model has also cast light onto novel prospects for therapies of HTLV induced diseases, for which no satisfactory treatment exists so far.
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Affiliation(s)
- Nicolas Gillet
- Molecular and Cellular Biology, Faculté Universitaire des Sciences Agronomiques, Gembloux, Belgium
| | - Arnaud Florins
- Molecular and Cellular Biology, Faculté Universitaire des Sciences Agronomiques, Gembloux, Belgium
| | - Mathieu Boxus
- Molecular and Cellular Biology, Faculté Universitaire des Sciences Agronomiques, Gembloux, Belgium
| | - Catherine Burteau
- Molecular and Cellular Biology, Faculté Universitaire des Sciences Agronomiques, Gembloux, Belgium
| | - Annamaria Nigro
- Molecular and Cellular Biology, Faculté Universitaire des Sciences Agronomiques, Gembloux, Belgium
| | - Fabian Vandermeers
- Molecular and Cellular Biology, Faculté Universitaire des Sciences Agronomiques, Gembloux, Belgium
| | - Hervé Balon
- Molecular and Cellular Biology, Faculté Universitaire des Sciences Agronomiques, Gembloux, Belgium
| | - Amel-Baya Bouzar
- Molecular and Cellular Biology, Faculté Universitaire des Sciences Agronomiques, Gembloux, Belgium
| | - Julien Defoiche
- Molecular and Cellular Biology, Faculté Universitaire des Sciences Agronomiques, Gembloux, Belgium
| | - Arsène Burny
- Molecular and Cellular Biology, Faculté Universitaire des Sciences Agronomiques, Gembloux, Belgium
| | | | - Richard Kettmann
- Molecular and Cellular Biology, Faculté Universitaire des Sciences Agronomiques, Gembloux, Belgium
| | - Luc Willems
- Molecular and Cellular Biology, Faculté Universitaire des Sciences Agronomiques, Gembloux, Belgium
- Luc Willems, National fund for Scientific Research, Molecular and Cellular Biology laboratory, 13 avenue Maréchal Juin, 5030 Gembloux, Belgium
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Zhao X, McGirr KM, Buehring GC. Potential evolutionary influences on overlapping reading frames in the bovine leukemia virus pXBL region. Genomics 2007; 89:502-11. [PMID: 17239558 DOI: 10.1016/j.ygeno.2006.12.007] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2006] [Revised: 11/27/2006] [Accepted: 12/14/2006] [Indexed: 01/25/2023]
Abstract
Bovine leukemia virus contains a pXBL region encoding the 3' parts of four regulatory proteins (Tax, Rex, G4, R3) in overlapping reading frames. Here we report the pXBL polymorphisms of 30 isolates from four countries. Rates of overall and synonymous substitutions were consistently lower, and nucleotide/amino acid composition bias and codon bias higher, in more-overlapped than in less-overlapped regions. Ratios of nonsynonymous/synonymous substitutions were lowest in the tax gene and its subregions. The 5' parts of the four genes showed selection patterns corresponding to their genomic context outside of the pXBL region. Longer G4 variants due to a natural stop codon mutation had additional triple overlap with reduced sequence variability. These data support the concept that a higher level of overlapping in coding regions correlates with greater evolutionary constraint. Tax, the most conserved among the four regulatory proteins, showed purifying selection consistent with its importance in the viral life cycle.
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Affiliation(s)
- Xiangrong Zhao
- Graduate Program in Endocrinology, University of California at Berkeley, 3060 Valley Life Science Building, Berkeley, CA 94720-3140, USA.
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Zhao X, Jimenez C, Sentsui H, Buehring GC. Sequence polymorphisms in the long terminal repeat of bovine leukemia virus: evidence for selection pressures in regulatory sequences. Virus Res 2006; 124:113-24. [PMID: 17123656 DOI: 10.1016/j.virusres.2006.10.010] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2006] [Revised: 10/15/2006] [Accepted: 10/20/2006] [Indexed: 10/23/2022]
Abstract
Bovine leukemia virus (BLV) is an oncogenic virus widespread in cattle. It belongs to the genus Deltaretrovirus of the family Retroviridae along with human and simian T-lymphotropic viruses. The BLV transcriptional promoter is located in the proviral 5' long terminal repeat (LTR), composed of U3, R, and U5 regions. BLV LTR contains multiple cis-acting elements important for promoter activity, a short coding sequence (encoding the NH(2) terminus of the G4 regulatory protein), and non-regulatory/non-coding regions. Variation in coding sequences of BLV structural proteins has been studied extensively, but little work has been done on sequence variability of non-coding regions, mostly located in LTR. Here, we report the first study on the natural diversity of the BLV LTR, using viral isolates from 52 cattle in several different areas worldwide. Nucleotide variations from the consensus sequence were observed in most isolates and clustered phylogenetically, corresponding to the geographic distribution of donor cattle. Overall, regulatory regions were significantly more conserved than non-regulatory regions in the BLV LTR, as well as in LTR sub-regions (U3, R, and U5). Evidence of selection pressures in BLV LTR suggests that selection occurs not only in coding sequences, but may also involve regulatory sequences.
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Affiliation(s)
- Xiangrong Zhao
- Graduate Program in Endocrinology, University of California, Berkeley, CA 94720-3140, USA.
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McGirr KM, Buehuring GC. Tax & rex: overlapping genes of the Deltaretrovirus group. Virus Genes 2006; 32:229-39. [PMID: 16732475 DOI: 10.1007/s11262-005-6907-z] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2005] [Accepted: 08/22/2005] [Indexed: 10/24/2022]
Abstract
Bovine leukemia virus and human T-cell leukemia viruses I and II, members of the Deltaretrovirus group, have two regulatory genes, tax and rex, that are coded in overlapping reading frames. We found that sequence variations in the rex gene of each virus result in amino acid differences significantly more often than variations in the tax gene. For all three viruses the highest ratio of non-synonymous to synonymous changes was found in the rex gene. In the overlapping regions of tax and rex, the second codon position of Rex corresponds to the third codon position of Tax. Nucleotide C was present in all genes of the three viruses at the highest frequency and this bias was most pronounced in the rex gene. More specifically we found that the C bias and nucleotide variation is greatest at the second codon position of Rex and the third codon position of Tax in the area of tax/rex overlap. Changes in the second codon position of Rex always resulted in amino acid change whereas changes in the third codon position of Tax resulted in amino acid changes less than a third of the time. Analysis of the amino acid frequencies in both proteins shows that there is a disproportionately large percentage of the amino acids alanine, proline, serine and threonine (the four amino acids whose second codon position is C) in Rex. These findings led us to hypothesize that the Rex protein can withstand more amino acid changes than can the Tax protein suggesting that the Tax protein experiences higher evolutionary constraints and is the more conserved of the two proteins.
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Affiliation(s)
- Kathleen Margaret McGirr
- School of Public Health, Division of Infectious Diseases, University of California, Berkeley, CA 94720, USA.
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