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Salamat MKF, Gossner A, Bradford B, Hunter N, Hopkins J, Houston F. Scrapie infection and endogenous retroviral expression in sheep lymphoid tissues. Vet Immunol Immunopathol 2021; 233:110194. [PMID: 33530020 DOI: 10.1016/j.vetimm.2021.110194] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2020] [Revised: 12/28/2020] [Accepted: 01/08/2021] [Indexed: 01/09/2023]
Abstract
Transmissible spongiform encephalopathies, or prion diseases, are fatal neurodegenerative diseases affecting humans and animals. Although many host tissues express PrPC (essential for prion replication), relatively few cell types accumulate significant levels of infectivity, including neurons and other cell types in the nervous system, and follicular dendritic cells in secondary lymphoid organs. This suggests that tissue or cell-specific receptors or cofactors could play a role in controlling differential susceptibility to infection. Endogenous retroviruses (ERV), the remnants of ancient retroviral integration into the host germline, may represent one such cofactor. We examined the effect of scrapie infection on expression of three ovine ERV families (enJSRV/β1-OERV, γ1-OERV, γ2-OERV) in secondary lymphoid tissues of sheep at different time points following subcutaneous inoculation, using RT-qPCR. These OERVs were constitutively expressed in the prescapular lymph node and spleen of uninfected sheep. However, we were unable to find convincing evidence of specific differential expression of OERV in the same tissues following scrapie infection, in contrast to previous studies of ERV expression in brains of prion-infected mice and macaques. This study is the first to quantify the expression of potentially functional OERV transcripts in sheep lymphoid tissues, opening up interesting questions about the consequences for host immune function.
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Affiliation(s)
- M K F Salamat
- Division of Infection and Immunity, The Roslin Institute, R(D)SVS, University of Edinburgh, Easter Bush, Midlothian, EH25 9RG, UK
| | - A Gossner
- Division of Infection and Immunity, The Roslin Institute, R(D)SVS, University of Edinburgh, Easter Bush, Midlothian, EH25 9RG, UK
| | - B Bradford
- Division of Infection and Immunity, The Roslin Institute, R(D)SVS, University of Edinburgh, Easter Bush, Midlothian, EH25 9RG, UK
| | - N Hunter
- Division of Infection and Immunity, The Roslin Institute, R(D)SVS, University of Edinburgh, Easter Bush, Midlothian, EH25 9RG, UK
| | - J Hopkins
- Division of Infection and Immunity, The Roslin Institute, R(D)SVS, University of Edinburgh, Easter Bush, Midlothian, EH25 9RG, UK
| | - F Houston
- Division of Infection and Immunity, The Roslin Institute, R(D)SVS, University of Edinburgh, Easter Bush, Midlothian, EH25 9RG, UK.
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Trone‐Launer EK, Wang J, Lu G, Mateus‐Pinilla NE, Zick PR, Lamer JT, Shelton PA, Jacques CN. Differential gene expression in chronic wasting disease-positive white-tailed deer ( Odocoileus virginianus). Ecol Evol 2019; 9:12600-12612. [PMID: 31788200 PMCID: PMC6875659 DOI: 10.1002/ece3.5724] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2018] [Revised: 09/13/2019] [Accepted: 09/13/2019] [Indexed: 12/31/2022] Open
Abstract
Chronic wasting disease (CWD) is a transmissible spongiform encephalopathy (TSE) that affects cervid species throughout North America. We evaluated gene expression in white-tailed deer collected by Illinois Department of Natural Resource wildlife managers during annual population reduction (e.g., sharpshooting) and disease monitoring efforts throughout the CWD-endemic area of northcentral Illinois. We conducted comparative transcriptomic analysis of liver and retropharyngeal lymph node tissue samples between CWD-positive (n = 5) and CWD-not detected (n = 5) deer. A total of 74,479 transcripts were assembled, and 51,661 (69.36%) transcripts were found to have matched proteins in NCBI-NR and UniProt. Our analysis of functional categories showed 40,308 transcripts were assigned to at least one Gene Ontology term and 37,853 transcripts were involved in at least one pathway. We identified a total of 59 differentially expressed genes (DEGs) in CWD-positive deer, of which 36 and 23 were associated with liver and retropharyngeal lymph node tissues, respectively. Functions of DEGs lend support to previous relationships between misfolded PrP and cellular membranes (e.g., STXBP5), and internal cellular components. We identified several genes that suggest a link between CWD and retroviruses and identified the gene ADIPOQ that acts as a tumor necrosis factor (TNF) antagonist. This gene may lead to reduced production of TNF and impact disease progression and clinical symptoms associated with CWD (i.e., wasting syndrome). Use of candidate genes identified in this study suggests the activation of endogenous processes in CWD-positive deer, which in turn may enable earlier detection of the disease.
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Affiliation(s)
- Emma K. Trone‐Launer
- Department of Biological SciencesWestern Illinois UniversityMacombILUSA
- Present address:
Illinois Department of Natural ResourcesCoffeenILUSA
| | - Jun Wang
- Key Laboratory of Freshwater Fisheries Germplasm ResourcesMinistry of AgricultureShanghai Ocean UniversityShanghaiChina
| | - Guoqing Lu
- Department of Biology and School of Interdisciplinary InformaticsUniversity of Nebraska OmahaOmahaNEUSA
| | - Nohra E. Mateus‐Pinilla
- Illinois Natural History Survey—Prairie Research InstituteUniversity of Illinois Urbana‐ChampaignChampaignILUSA
| | - Paige R. Zick
- Department of Biological SciencesWestern Illinois UniversityMacombILUSA
| | - James T. Lamer
- Illinois River Biological StationIllinois Natural History SurveyHavanaILUSA
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Abstract
Retrotransposons have generated about 40 % of the human genome. This review examines the strategies the cell has evolved to coexist with these genomic "parasites", focussing on the non-long terminal repeat retrotransposons of humans and mice. Some of the restriction factors for retrotransposition, including the APOBECs, MOV10, RNASEL, SAMHD1, TREX1, and ZAP, also limit replication of retroviruses, including HIV, and are part of the intrinsic immune system of the cell. Many of these proteins act in the cytoplasm to degrade retroelement RNA or inhibit its translation. Some factors act in the nucleus and involve DNA repair enzymes or epigenetic processes of DNA methylation and histone modification. RISC and piRNA pathway proteins protect the germline. Retrotransposon control is relaxed in some cell types, such as neurons in the brain, stem cells, and in certain types of disease and cancer, with implications for human health and disease. This review also considers potential pitfalls in interpreting retrotransposon-related data, as well as issues to consider for future research.
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Affiliation(s)
- John L. Goodier
- McKusick-Nathans Institute for Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD USA 212051
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Naveira H, Bello X, Abal-Fabeiro JL, Maside X. Evidence for the persistence of an active endogenous retrovirus (ERVE) in humans. Genetica 2014; 142:451-60. [PMID: 25192754 DOI: 10.1007/s10709-014-9789-y] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2013] [Accepted: 08/26/2014] [Indexed: 02/02/2023]
Abstract
Transposable elements (TEs) account for nearly half (44 %) of the human genome. However, their overall activity has been steadily declining over the past 35-50 million years, so that <0.05 % of TEs are presumably still "alive" (potentially transposable) in human populations. All the active elements are retrotransposons, either autonomous (LINE-1 and possibly the endogenous retrovirus ERVK), or non-autonomous (Alu and SVA, whose transposition is dependent on the LINE-1 enzymatic machinery). Here we show that a lineage of the endogenous retrovirus ERVE was recently engaged in ectopic recombination events and may have at least one potentially fully functional representative, initially reported as a novel retrovirus isolated from blood cells of a Chinese patient with chronic myeloid leukemia, which bears signals of positive selection on its envelope region. Altogether, there is strong evidence that ERVE should be included in the short list of potentially active TEs, and we give clues on how to identify human specific insertions of this element that are likely to be segregating in some of our populations.
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MESH Headings
- Animals
- Base Sequence
- Endogenous Retroviruses/classification
- Endogenous Retroviruses/genetics
- Evolution, Molecular
- Gene Products, env/chemistry
- Gene Products, env/genetics
- Genome, Human/genetics
- Humans
- Leukemia, Myelogenous, Chronic, BCR-ABL Positive/genetics
- Models, Molecular
- Molecular Sequence Data
- Phylogeny
- Protein Structure, Tertiary
- Retroelements/genetics
- Selection, Genetic
- Sequence Analysis, DNA
- Sequence Homology, Nucleic Acid
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Affiliation(s)
- Horacio Naveira
- Grupo de Investigación en Bioloxía Evolutiva, Departamento de Bioloxía Celular e Molecular, Centro de Investigaciones Científicas Avanzadas (CICA), Universidade da Coruña, 15071, A Coruña, Spain,
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Manghera M, Ferguson J, Douville R. Endogenous Retrovirus-K and Nervous System Diseases. Curr Neurol Neurosci Rep 2014; 14:488. [DOI: 10.1007/s11910-014-0488-y] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
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