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Infectious vaccine-derived rubella viruses emerge, persist, and evolve in cutaneous granulomas of children with primary immunodeficiencies
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Recent analysis of SARS-CoV-2 and rubella vaccine virus genome data derived from patients show predominant mutational patterns with specific signatures rather than random genetic variations, suggesting that host-factor induced mutations play an important role in shaping the viral genomic RNA mutational outcome and evolution.
“Recent analysis of SARS-CoV-2 and rubella vaccine virus genome data derived from patients show predominant mutational patterns with specific signatures rather than random genetic variations, suggesting that the host-factor induced mutations play an important role in shaping the viral genomic RNA mutational outcome and evolution11–14.”
From The roles of APOBEC-mediated RNA editing in SARS-CoV-2 mutations, replication and fitness (2022) · cites this paper as [13]
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Wherry, E. J. (2011) · Nature Immunology · doi:10.1038/ni.2035 · Cited by 4,062 · cited 1×
“Furthermore, T-cell exhaustion is known to be important for other chronic viral infections [65].”
BackgroundDomingo, E., Sheldon, J., & Perales, C. (2012) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.05023-11 · Cited by 1,009
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Research works printed but not linked: 82
- WE Rawls, 1974, Viral persistence in congenital rubella, Prog Med Virol, 18, 273
- N Lambert, 2015, Rubella, Lancet
- FE Sherman, 1965, Acute encephalopathy (encephalitis) complicating rubella. Report of cases with virologic studies, cortisol-production determinations, and observations at autopsy, JAMA, 192, 675, 10.1001/jama.1965.03080210019005 · DOI
- EO Kreps, 2015, Fuchs' uveitis syndrome: no longer a syndrome?, Ocul Iammunol and Inflamm, 29, 1
- SA Plotkin, 2006, The history of rubella and rubella vaccination leading to elimination, Clin Infect Dis, 43, S164, 10.1086/505950 · DOI
- GB Grant, 2017, Progress in rubella and congenital rubella syndrome control and elimination—Worldwide, 2000–2016, MMWR Morb Mortal Wkly Rep, 66, 1256, 10.15585/mmwr.mm6645a4 · DOI
- AJ Tingle, 1997, Randomised double-blind placebo-controlled study on adverse effects of rubella immunisation in seronegative women, Lancet, 349, 1277, 10.1016/S0140-6736(96)12031-6 · DOI
- SM Islam, 2000, Anterior uveitis following combined vaccination for measles, mumps and rubella (MMR): a report of two cases, Acta Ophthalmol Scand, 78, 590, 10.1034/j.1600-0420.2000.078005590.x · DOI
- S Plotkin, 2011, Infectious diseases of the fetus and newborn infant, 861, 10.1016/B978-1-4160-6400-8.00028-6 · DOI
- C Picard, 2018, International Union of Immunological Societies: 2017 primary immunodeficiency diseases committee report on inborn errors of immunity, J Clin Immunol, 38, 96, 10.1007/s10875-017-0464-9 · DOI
- WT Shearer, 2014, Recommendations for live viral and bacterial vaccines in immunodeficient patients and their close contacts, J Allergy Clin Immunol, 133, 961, 10.1016/j.jaci.2013.11.043 · DOI
- MM Eibl, 2015, Vaccination in patients with primary immune deficiency, secondary immune deficiency and autoimmunity with immune regulatory abnormalities, Immunotherapy, 7, 1273, 10.2217/IMT.15.74 · DOI
- A Nanda, 2014, Noninfectious cutaneous granulomas in primary immunodeficiency disorders: report from a national registry, Am J Dermatopathol, 36, 832, 10.1097/DAD.0000000000000112 · DOI
- J Leung, 2018, Prevalence of granulomas in patients with primary immunodeficiency disorders, United States: Data From national health care claims and the US Immunodeficiency Network Registry, J Clin Immunol, 38, 717, 10.1007/s10875-018-0534-7 · DOI
- C Bodemer, 2014, Live rubella virus vaccine long-term persistence as an antigenic trigger of cutaneous granulomas in patients with primary immunodeficiency, Clin Microbiol Infect, 20, O656, 10.1111/1469-0691.12573 · DOI
- L Perelygina, 2016, Rubella persistence in epidermal keratinocytes and granuloma M2 macrophages in patients with primary immunodeficiencies, J Allergy Clin Immunol, 138, 1436, 10.1016/j.jaci.2016.06.030 · DOI
- B Neven, 2017, Cutaneous and visceral chronic granulomatous disease triggered by a rubella virus vaccine strain in children with primary immunodeficiencies, Clin Infect Dis, 64, 83, 10.1093/cid/ciw675 · DOI
- D Buchbinder, 2019, Rubella virus-associated cutaneous granulomatous disease: a unique complication in immune-deficient patients, not limited to DNA repair disorders, J Clin Immunol
- SA Plotkin, 1969, Attenuation of RA 27–3 rubella virus in WI-38 human diploid cells, Am J Dis Child, 118, 178
- L Perelygina, 2015, Differences in establishment of persistence of vaccine and wild type rubella viruses in fetal endothelial cells, PLoS One, 10, e0133267, 10.1371/journal.pone.0133267 · DOI
- JA Gonzales, 2018, Association of ocular inflammation and rubella virus persistence, JAMA Ophthalmol
- Z Yang, 2000, Statistical methods for detecting molecular adaptation, Trends Ecol Evol, 15, 496, 10.1016/S0169-5347(00)01994-7 · DOI
- J Echave, 2016, Causes of evolutionary rate variation among protein sites, Nat Rev Genet, 17, 109, 10.1038/nrg.2015.18 · DOI
- Z Liu, 1996, Identification of domains in rubella virus genomic RNA and capsid protein necessary for specific interaction, J Virol, 70, 2184, 10.1128/JVI.70.4.2184-2190.1996 · DOI
- MH Chen, 2004, Rubella virus capsid protein modulates viral genome replication and virus infectivity, J Virol, 78, 4314, 10.1128/JVI.78.8.4314-4322.2004 · DOI
- CS Ilkow, 2011, The rubella virus capsid as an anti-apoptotic protein that attenuates the pore-forming ability of Bax, PLoS Pathog, 7, e1001291, 10.1371/journal.ppat.1001291 · DOI
- V Petit, 2009, Murine APOBEC1 is a powerful mutator of retroviral and cellular RNA in vitro and in vivo, J Mol Biol, 385, 65, 10.1016/j.jmb.2008.10.043 · DOI
- RS Harris, 2015, APOBECs and virus restriction, Virology, 479-480, 131, 10.1016/j.virol.2015.03.012 · DOI · Paper page
- S Tomaselli, 2015, ADARs and the balance game between virus infection and innate immune cell response, Curr Issues Mol Biol, 17, 37
- EW Refsland, 2013, The APOBEC3 family of retroelement restriction factors, Curr Top Microbiol Immunol, 371, 1
- A Niavarani, 2015, APOBEC3A is implicated in a novel class of G-to-A mRNA editing in WT1 transcripts, PLoS One, 10, e0120089, 10.1371/journal.pone.0120089 · DOI
- S Sharma, 2015, APOBEC3A cytidine deaminase induces RNA editing in monocytes and macrophages, Nat Commun, 6, 6881, 10.1038/ncomms7881 · DOI · Paper page
- S Sharma, 2016, The double-domain cytidine deaminase APOBEC3G is a cellular site-specific RNA editing enzyme, Sci Rep, 6, 39100, 10.1038/srep39100 · DOI · Paper page
- KM Prohaska, 2014, The multifaceted roles of RNA binding in APOBEC cytidine deaminase functions, Wiley Interdiscip Rev RNA, 5, 493, 10.1002/wrna.1226 · DOI
- AG Lada, 2011, Mutator effects and mutation signatures of editing deaminases produced in bacteria and yeast, Biochemistry (Mosc), 76, 131, 10.1134/S0006297911010135 · DOI
- K Chan, 2015, An APOBEC3A hypermutation signature is distinguishable from the signature of background mutagenesis by APOBEC3B in human cancers, Nat Genet, 47, 1067, 10.1038/ng.3378 · DOI · Paper page
- D Yang, 1998, Effects of mutations in the rubella virus E1 glycoprotein on E1-E2 interaction and membrane fusion activity, J Virol, 72, 8747, 10.1128/JVI.72.11.8747-8755.1998 · DOI
- H Cong, 2011, Identification of the myelin oligodendrocyte glycoprotein as a cellular receptor for rubella virus, J Virol, 85, 11038, 10.1128/JVI.05398-11 · DOI
- L Ho-Terry, 1986, Immunological characterisation of the rubella E 1 glycoprotein. Brief report, Arch Virol, 90, 145, 10.1007/BF01314152 · DOI
- HH Chaye, 1992, Cellular and humoral immune responses to rubella virus structural proteins E1, E2, and C, J Clin Microbiol, 30, 2323, 10.1128/JCM.30.9.2323-2329.1992 · DOI
- JS Wolinsky, 1991, Monoclonal antibody-defined epitope map of expressed rubella virus protein domains, J Virol, 65, 3986, 10.1128/JVI.65.8.3986-3994.1991 · DOI
- KY Green, 1986, Rubella virus antigens: localization of epitopes involved in hemagglutination and neutralization by using monoclonal antibodies, J Virol, 57, 893, 10.1128/JVI.57.3.893-898.1986 · DOI
- AE Lovett, 1993, Rubella virus-specific cytotoxic T-lymphocyte responses: identification of the capsid as a target of major histocompatibility complex class I-restricted lysis and definition of two epitopes, J Virol, 67, 5849, 10.1128/JVI.67.10.5849-5858.1993 · DOI
- D Ou, 1997, Characterization of an overlapping CD8+ and CD4+ T-cell epitope on rubella capsid protein, Virology, 235, 286, 10.1006/viro.1997.8704 · DOI
- RM DuBois, 2013, Functional and evolutionary insight from the crystal structure of rubella virus protein E1, Nature, 493, 552, 10.1038/nature11741 · DOI
- SA Plotkin, 1985, History of RA27/3 rubella vaccine, Rev Infect Dis, 7, S77, 10.1093/clinids/7.Supplement_1.S77 · DOI
- L Perelygina, 2013, Persistent infection of human fetal endothelial cells with rubella virus, PLoS One, 8, e73014, 10.1371/journal.pone.0073014 · DOI
- EE Seagle, 2018, Measles, mumps, and rubella antibody patterns of persistence and rate of decline following the second dose of the MMR vaccine, Vaccine, 36, 818, 10.1016/j.vaccine.2017.12.075 · DOI · Paper page
- NP Miki, 1992, Differential ability of wild-type and vaccine strains of rubella virus to replicate and persist in human joint tissue, Clin Exp Rheumatol, 10, 3
- S Duffy, 2008, Rates of evolutionary change in viruses: patterns and determinants, Nat Rev Genet, 9, 267, 10.1038/nrg2323 · DOI
- Z Zhu, 2016, Analysis of complete genomes of the rubella virus genotypes 1E and 2B which circulated in China, 2000–2013, Sci Rep., 6, 39025, 10.1038/srep39025 · DOI
- E Domingo, 1998, Quasispecies structure and persistence of RNA viruses, Emerg Infect Dis, 4, 521, 10.3201/eid0404.980402 · DOI
- P Farci, 2000, The outcome of acute hepatitis C predicted by the evolution of the viral quasispecies, Science, 288, 339, 10.1126/science.288.5464.339 · DOI
- P Lemey, 2006, HIV evolutionary dynamics within and among hosts, AIDS Rev, 8, 125
- J Raghwani, 2016, Exceptional heterogeneity in viral evolutionary dynamics characterises chronic hepatitis C virus infection, PLoS Pathog, 12, e1005894, 10.1371/journal.ppat.1005894 · DOI
- FA Koning, 2009, Defining APOBEC3 expression patterns in human tissues and hematopoietic cell subsets, J Virol, 83, 9474, 10.1128/JVI.01089-09 · DOI
- Y Liu, 2015, Circulating type 1 vaccine-derived poliovirus may evolve under the pressure of adenosine deaminases acting on RNA, J Matern Fetal Neonatal Med, 28, 2096, 10.3109/14767058.2014.979147 · DOI
- M Fehrholz, 2012, The innate antiviral factor APOBEC3G targets replication of measles, mumps and respiratory syncytial viruses, J Gen Virol, 93, 565, 10.1099/vir.0.038919-0 · DOI
- A Milewska, 2018, APOBEC3-mediated restriction of RNA virus replication, Sci Rep, 8, 5960, 10.1038/s41598-018-24448-2 · DOI
- E Abernathy, 2013, Analysis of whole genome sequences of 16 strains of rubella virus from the United States, 1961–2009, Virol J., 10, 32, 10.1186/1743-422X-10-32 · DOI
- GM Schiff, 1963, Rubella virus: neutralizing antibody in commercial gamma globulin, Science, 142, 58, 10.1126/science.142.3588.58 · DOI
- JA Quiroga, 1995, Immunoglobulin M antibody to hepatitis C virus core antigen: correlations with viral replication, histological activity, and liver disease outcome, Hepatology, 22, 1635, 10.1002/hep.1840220604 · DOI
- A Aghamohammadi, 2017, Patients with primary immunodeficiencies are a reservoir of poliovirus and a risk to polio eradication, Front Immunol, 8, 685, 10.3389/fimmu.2017.00685 · DOI
- MJ Memoli, 2014, The natural history of influenza infection in the severely immunocompromised vs nonimmunocompromised hosts, Clin Infect Dis, 58, 214, 10.1093/cid/cit725 · DOI
- KS Xue, 2017, Parallel evolution of influenza across multiple spatiotemporal scales, Elife, 6
- J Dhossche, 2019, Cutaneous Granulomatous Disease With Presence of Rubella Virus in Lesions, JAMA Dermatol
- L Perelygina, 2019, Outcomes for nitazoxanide treatment in a case series of patients with primary immunodeficiencies and rubella virus-associated granuloma, J Clin Immunol
- E Abernathy, 2009, Confirmation of rubella within 4 days of rash onset: comparison of rubella virus RNA detection in oral fluid with immunoglobulin M detection in serum or oral fluid, J Clin Microbiol, 47, 182, 10.1128/JCM.01231-08 · DOI
- P Namuwulya, 2014, Phylogenetic analysis of rubella viruses identified in Uganda, 2003–2012, J Med Virol
- MH Chen, 2007, An indirect immunocolorimetric assay to detect rubella virus infected cells, J Virol Methods, 146, 414, 10.1016/j.jviromet.2007.08.021 · DOI
- JS Rota, 2013, Comparison of the sensitivity of laboratory diagnostic methods from a well-characterized outbreak of mumps in New York city in 2009, Clin Vaccine Immunol., 20, 391, 10.1128/CVI.00660-12 · DOI
- KB Hummel, 1992, Baculovirus expression of the nucleoprotein gene of measles virus and utility of the recombinant protein in diagnostic enzyme immunoassays, J Clin Microbiol, 30, 2874, 10.1128/JCM.30.11.2874-2880.1992 · DOI
- KB Hummel, 2006, Development of quantitative gene-specific real-time RT-PCR assays for the detection of measles virus in clinical specimens, J Virol Methods, 132, 166, 10.1016/j.jviromet.2005.10.006 · DOI
- 2005, Standardization of the nomenclature for genetic characteristics of wild-type rubella viruses, Wkly Epidemiol Rec, 80, 126
- RC Edgar, 2004, MUSCLE: multiple sequence alignment with high accuracy and high throughput, Nucleic Acids Res, 32, 1792, 10.1093/nar/gkh340 · DOI · Paper page
- S Kumar, 2016, MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets, Mol Biol Evol, 33, 1870, 10.1093/molbev/msw054 · DOI
- M Nei, 1986, Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions, Mol Biol Evol, 3, 418
- B Korber, 2000, Computational analysis of HIV molecular sequences, 55
- K Jukes, 1969, Mammalian Protein Metabolism, 21, 10.1016/B978-1-4832-3211-9.50009-7 · DOI · Paper page
- IY Torshin, 2004, Computed energetics of nucleotides in spatial ribozyme structures: an accurate identification of functional regions from structure, ScientificWorldJournal, 4, 228, 10.1100/tsw.2004.19 · DOI
- I Patrusheva, 2016, B virus (Macacine Herpesvirus 1) divergence: variations in glycoprotein D from clinical and laboratory isolates diversify virus entry strategies, J Virol, 90, 9420, 10.1128/JVI.00799-16 · DOI
- JM Eggington, 2011, Predicting sites of ADAR editing in double-stranded RNA, Nat Commun, 2, 319, 10.1038/ncomms1324 · DOI
Cited by
Sorted by citations
The roles of APOBEC-mediated RNA editing in SARS-CoV-2 mutations, replication and fitness
Kim, K., Calabrese, P., Wang, S., Qin, C., Rao, Y., Feng, P., & Chen, X. S. (2022) · Scientific Reports · doi:10.1038/s41598-022-19067-x · Cited by 115
Kitamura, K., & Shimizu, H. (2021) · Viruses · doi:10.3390/v13071407 · Cited by 14
Metadata
- Authors
- Perelygina, L., Chen, M.-H., Suppiah, S., Adebayo, A., Abernathy, E., Dorsey, M., Bercovitch, L., Paris, K., White, K. P., Krol, A., Dhossche, J., Torshin, I. Y., Saini, N., Klimczak, L. J., Gordenin, D. A., Zharkikh, A., Plotkin, S., Sullivan, K. E., & Icenogle, J.
- ORCID
- Venue
- PLOS Pathogens
- Publisher
- Public Library of Science (PLoS)
- Published
- 2019-10-28
- Volume
- 15
- Issue
- 10
- Pages
- e1008080
- ISSN
- 1553-7374
- PMC
- PMC6837625
- Cited by
- 87
- References
- 2
- Language
- en
- Update notices
- new_version (2019-11-07)
- Funders
- Centers for Disease Control and Prevention (core funding to rubella team)
- US National Institute of Health (Z1AES103266, R21-AI130967-01A1)
- Wallace Chair of Pediatrics
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