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Tuanthap S, Phupolphan C, Luengyosluechakul S, Duang-in U, Theamboonlers A, Vongpunsawad S, Wattanaphansak S, Amonsin A, Poovorawan Y.2018. Molecular characterization of porcine rotavirus C in pigs with gastroenteritis in Thailand, 2011 – 2016. PeerJ Preprints6:e3515v1https://doi.org/10.7287/peerj.preprints.3515v1
Swine are economically important food animals, but highly contagious enteric viruses can affect entire swine herds and contribute significantly to piglet morbidity and mortality. The most frequent viruses associated with pig gastroenteritis have been reported as porcine epidemic diarrhea virus (PEDV) and rotavirus. Rotavirus is an important cause of diarrhea in piglets and pigs worldwide, and group A and C types are those that pig herds are mostly affected by. In Thailand, studies on rotavirus group A (RVA) have been reported continuously, whereas information on group C is still limited. In this study, we aimed to identify rotavirus group C (RVC) from the feces and intestinal contents of pigs affected with diarrhea. Seven hundred and sixty-nine samples were collected from swine herds located in difference provinces throughout Thailand. The specimens were tested using virus-specific RT-PCR to detect the gene encoding RVC capsid protein VP7 and VP4. Sequencing analyses showed that 6.6% (51/769) of samples were positive for RVC, one third of which tested as single positive for RVC (34/51). Co-infections with the most frequent enteric viruses, RVA and PEDV were also analyzed. Co-infections of RVA/RVC accounted for 21.6% (11/51) of samples and of PEDV/RVC for 7.8% (4/51) of samples, while three samples (5.9%) tested positive for all three viruses. Infections were not associated with seasonality, since the virus was detected throughout the year. RVC was detected in pigs up to 8 weeks old. Analysis of the partial VP7 gene sequences was suggestive that the predominant genotype was G1, which was closely related to the prototype Cowden strain. Due to P was the most prevalent of VP4 genotype. This study demonstrated the low prevalence of RVC in Thailand, a virus not previously documented in this country.
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Multiple sequence alignments of the eight variable regions (VR1–VR8) in each RVC genotypes
Different colors correspond to hypervariable sites. Dashes indicate gap;. · indicates identical amino acids. The N-glycosylation site between residues 67 and 69 is presented in red. The color shading indicates the mutations among current strains and RVC prototype or reference strains (bold), whereas pink, purple, yellow, light blue, green, orange and turquoise colors stand for those residues located within VR-2 to VR-8, respectively. The whole VR-1 region and the first seven residues of the VR-2 region (between residues 31 and 37) were non-applicable.