Add rotavirus paper

Signed-off-by: Thomas A. Christensen II <25492070+MillironX@users.noreply.github.com>

content/academia/rotavirus-virome.md

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+---
+title:
+  "Assessment of Porcine Rotavirus-associated virome variations in pigs with
+  enteric disease"
+date: 2022-04-27
+cardImage: cannulated-cows
+draft: true
+featured: true
+keywords:
+  - porcine rotavirus
+  - porcine enteric disease
+  - virome
+  - rotavirus
+type: paper
+authors:
+  - Tyler Doerksen
+  - Thomas A. Christensen II
+  - Andrea Lu
+  - Lance Noll
+  - Jianfa Bai
+  - Jamie Henningson
+  - Rachel Palinski
+link: https://doi.org/10.1016/j.vetmic.2022.109447
+journal: Veterinary Microbiology
+---
+
+Enteric disease is the predominant cause of morbidity and mortality in young
+mammals including pigs. Viral species involved in porcine enteric disease
+complex (PEDC) include rotaviruses, coronaviruses, picornaviruses, astroviruses
+and pestiviruses among others. The virome of three groups of swine samples
+submitted to the Kansas State University Veterinary Diagnostic Laboratory for
+routine testing were assessed, namely, a Rotavirus A positive (RVA) group, a
+Rotavirus co-infection (RV) group and a Rotavirus Negative (RV Neg) group. All
+groups were designated by qRT-PCR results testing for Porcine Rotavirus A, B, C
+and H such that samples positive for RVA only went in the RVA group, samples
+positive for >1 rotavirus went in the RV group and samples negative for all were
+grouped in the RVNeg group. All of the animals had clinical enteric disease
+resulting in scours and swollen joints/lameness, enlarged heart and/or a cough.
+All samples were metagenomic sequenced and analyzed for viral species
+composition that identified 14 viral species and eight bacterial viruses/phages.
+Sapovirus and Escherichia coli phages were found at a high prevalence in RVA and
+RV samples but were found at low or no prevalence in the RV Neg samples.
+Picobirnavirus was identified at a high proportion and prevalence in RV Neg and
+RV samples but at a low prevalence in the RVA group. A sequence analysis of the
+possible host of Picobirnaviruses revealed fungi as the most likely host.
+Non-rotaviral diversity was highest in RVA samples followed by RV then RV Neg
+samples. Various sequences were extracted from the sample reads and a
+phylogenetic update was provided showing a high prevalence of G9 and P[23] RVA
+genotypes. These data are important for pathogen surveillance and control
+measures