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    <title>Lance Noll on MillironX</title>
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      <title>Assessment of Porcine Rotavirus-associated virome variations in pigs with enteric disease</title>
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      <pubDate>Wed, 27 Apr 2022 00:00:00 +0000</pubDate>
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      <description>&lt;p&gt;Enteric disease is the predominant cause of morbidity and mortality in young&#xA;mammals including pigs. Viral species involved in porcine enteric disease&#xA;complex (PEDC) include rotaviruses, coronaviruses, picornaviruses, astroviruses&#xA;and pestiviruses among others. The virome of three groups of swine samples&#xA;submitted to the Kansas State University Veterinary Diagnostic Laboratory for&#xA;routine testing were assessed, namely, a Rotavirus A positive (RVA) group, a&#xA;Rotavirus co-infection (RV) group and a Rotavirus Negative (RV Neg) group. All&#xA;groups were designated by qRT-PCR results testing for Porcine Rotavirus A, B, C&#xA;and H such that samples positive for RVA only went in the RVA group, samples&#xA;positive for &amp;gt;1 rotavirus went in the RV group and samples negative for all were&#xA;grouped in the RVNeg group. All of the animals had clinical enteric disease&#xA;resulting in scours and swollen joints/lameness, enlarged heart and/or a cough.&#xA;All samples were metagenomic sequenced and analyzed for viral species&#xA;composition that identified 14 viral species and eight bacterial viruses/phages.&#xA;Sapovirus and Escherichia coli phages were found at a high prevalence in RVA and&#xA;RV samples but were found at low or no prevalence in the RV Neg samples.&#xA;Picobirnavirus was identified at a high proportion and prevalence in RV Neg and&#xA;RV samples but at a low prevalence in the RVA group. A sequence analysis of the&#xA;possible host of Picobirnaviruses revealed fungi as the most likely host.&#xA;Non-rotaviral diversity was highest in RVA samples followed by RV then RV Neg&#xA;samples. Various sequences were extracted from the sample reads and a&#xA;phylogenetic update was provided showing a high prevalence of G9 and P[23] RVA&#xA;genotypes. These data are important for pathogen surveillance and control&#xA;measures&lt;/p&gt;</description>
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