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The prevalence of FMDV persistence was similar in both groups (62% in vaccinated cattle, 67% in nonvaccinated cattle), despite vaccinated cattle having been protected from clinical disease. Analysis of antemortem infection dynamics demonstrated that the subclinical divergence between FMDV carriers and animals that cleared the infection had occurred by 10 days postinfection (dpi) in vaccinated cattle and by 21 dpi in nonvaccinated animals. The anatomic distribution of virus in subclinically infected, vaccinated cattle was restricted to the pharynx throughout both the early and the persistent phases of infection. In nonvaccinated cattle, systemically disseminated virus was cleared from peripheral sites by 10 dpi, while virus selectively persisted within the nasopharynx of a subset of animals. The quantities of viral RNA shed in oropharyngeal fluid during FMDV persistence were similar in vaccinated and nonvaccinated cattle. FMDV structural and nonstructural proteins were localized to follicle-associated epithelium of the dorsal soft palate and dorsal nasopharynx in persistently infected cattle. Host transcriptome analysis of tissue samples processed by laser capture microdissection indicated suppression of antiviral host factors (interferon regulatory factor 7, CXCL10 [gamma interferon-inducible protein 10], gamma interferon, and lambda interferon) in association with persistent FMDV. In contrast, during the transitional phase of infection, the level of expression of IFN-\u03bb mRNA was higher in follicle-associated epithelium of animals that had cleared the infection. This work provides novel insights into the intricate mechanisms of FMDV persistence and contributes to further understanding of this critical aspect of FMDV pathogenesis.<\/jats:p><jats:p><jats:bold>IMPORTANCE<\/jats:bold>The existence of a prolonged, asymptomatic carrier state is a political impediment for control and potential eradication of foot-and-mouth disease (FMD). When FMD outbreaks occur, they are often extinguished by massive depopulation of livestock due to the fear that some animals may have undiagnosed subclinical infection, despite uncertainty over the biological relevance of FMD virus (FMDV) persistence. The work described here elucidates aspects of the FMDV carrier state in cattle which may facilitate identification and\/or abrogation of asymptomatic FMDV infection. The divergence between animals that clear infection and those that develop persistent infection was demonstrated to occur earlier than previously established. The host antiviral response in tissues maintaining persistent FMDV was downregulated, whereas upregulation of IFN-\u03bb mRNA was found in the epithelium of cattle that had recently cleared the infection. This suggests that the clearing of FMDV infection is associated with an enhanced mucosal antiviral response, whereas FMDV persistence is associated with suppression of the host antiviral response.<\/jats:p>","DOI":"10.1128\/jvi.00388-16","type":"journal-article","created":{"date-parts":[[2016,5,5]],"date-time":"2016-05-05T04:19:50Z","timestamp":1462421990000},"page":"6344-6364","update-policy":"https:\/\/doi.org\/10.1128\/asmj-crossmark-policy-page","source":"Crossref","is-referenced-by-count":114,"title":["The Foot-and-Mouth Disease Carrier State Divergence in Cattle"],"prefix":"10.1128","volume":"90","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-2074-3886","authenticated-orcid":false,"given":"Carolina","family":"Stenfeldt","sequence":"first","affiliation":[{"name":"Plum Island Animal Disease Center, Foreign Animal Disease Research Unit, Agricultural Research Service, United States Department of Agriculture, Greenport, New York, USA"},{"name":"Oak Ridge Institute for Science and Education, PIADC Research Participation Program, Oak Ridge, Tennessee, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Michael","family":"Eschbaumer","sequence":"additional","affiliation":[{"name":"Plum Island Animal Disease Center, Foreign Animal Disease Research Unit, Agricultural Research Service, United States Department of Agriculture, Greenport, New York, USA"},{"name":"Oak Ridge Institute for Science and Education, PIADC Research Participation Program, Oak Ridge, Tennessee, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Steven I.","family":"Rekant","sequence":"additional","affiliation":[{"name":"Plum Island Animal Disease Center, Foreign Animal Disease Research Unit, Agricultural Research Service, United States Department of Agriculture, Greenport, New York, USA"},{"name":"Oak Ridge Institute for Science and Education, PIADC Research Participation Program, Oak Ridge, Tennessee, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Juan M.","family":"Pacheco","sequence":"additional","affiliation":[{"name":"Plum Island Animal Disease Center, Foreign Animal Disease Research Unit, Agricultural Research Service, United States Department of Agriculture, Greenport, New York, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"George R.","family":"Smoliga","sequence":"additional","affiliation":[{"name":"Plum Island Animal Disease Center, Foreign Animal Disease Research Unit, Agricultural Research Service, United States Department of Agriculture, Greenport, New York, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ethan J.","family":"Hartwig","sequence":"additional","affiliation":[{"name":"Plum Island Animal Disease Center, Foreign Animal Disease Research Unit, Agricultural Research Service, United States Department of Agriculture, Greenport, New York, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Luis L.","family":"Rodriguez","sequence":"additional","affiliation":[{"name":"Plum Island Animal Disease Center, Foreign Animal Disease Research Unit, Agricultural Research Service, United States Department of Agriculture, Greenport, New York, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jonathan","family":"Arzt","sequence":"additional","affiliation":[{"name":"Plum Island Animal Disease Center, Foreign Animal Disease Research Unit, Agricultural Research Service, United States Department of Agriculture, Greenport, New York, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"235","reference":[{"key":"e_1_3_2_2_2","doi-asserted-by":"publisher","DOI":"10.1016\/S0021-9975(03)00045-8"},{"key":"e_1_3_2_3_2","doi-asserted-by":"publisher","DOI":"10.1128\/CMR.17.2.465-493.2004"},{"key":"e_1_3_2_4_2","first-page":"9","article-title":"Foot-and-mouth disease: host range and pathogenesis","volume":"288","author":"Alexandersen S","year":"2005","unstructured":"Alexandersen S, Mowat N. 2005. 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