PMID- 36047475 OWN - NLM STAT- MEDLINE DCOM- 20220929 LR - 20221003 IS - 2053-1095 (Electronic) IS - 2053-1095 (Linking) VI - 8 IP - 5 DP - 2022 Sep TI - Metagenomic analysis of endemic viruses in oral secretions from Chinese pigs. PG - 1982-1992 LID - 10.1002/vms3.869 [doi] AB - BACKGROUND: Pigs are unique reservoirs for virus ecology. Despite the increased use of improved biosecurity measures, pig viruses readily circulate in Chinese swine farms. OBJECTIVES: The main objective of this study was to examine archived swine oral secretion samples with a panel of pan-species viral assays such that we might better describe the viral ecology of swine endemic viruses in Chinese farms. METHODOLOGY: Two hundred (n = 200) swine oral secretion samples, collected during 2015 and 2016 from healthy pigs on six swine farms in two provinces in China, were screened with molecular pan-species assays for coronaviruses (CoVs), adenoviruses (AdVs), enteroviruses (EVs), and paramyxoviruses (PMV). Samples were also screened for porcine circovirus (PCV) 3, porcine reproductive and respiratory syndrome virus (PRRSV) and influenza A virus (IAV). RESULTS: Among 200 swine oral secretion samples, 152 (76.0%) were found to have at least one viral detection. Thirty-four samples (17%) were positive for more than one virus, including 24 (70.5%) with dual detection and 10 (29.5%) with triple detection. Seventy-eight (39.0%) samples were positive for porcine AdVs, 22 (11.0%) were positive for porcine CoVs, 21 (10.5%) were positive for IAVs, 13 (6.5%) were positive for PCV, 7 (3.5%) were positive for PMV, six (3.0%) were positive for PRRSV and five (2.5%) were positive for porcine EV. CONCLUSION: Our findings underscore the high prevalence of numerous viruses among production pigs in China and highlight the need for routine, periodic surveillance for novel virus emergence with the goal of protecting pigs. CI - (c) 2022 The Authors. Veterinary Medicine and Science published by John Wiley & Sons Ltd. FAU - Umar, Sajid AU - Umar S AUID- ORCID: 0000-0001-7646-4125 AD - Global Health Research Center, Duke Kunshan University, Kunshan, Jiangsu, China. FAU - Anderson, Benjamin D AU - Anderson BD AD - Global Health Research Center, Duke Kunshan University, Kunshan, Jiangsu, China. AD - Division of Natural and Applied Sciences, Duke Kunshan University, Kunshan, Jiangsu, China. FAU - Chen, Kuanfu AU - Chen K AD - Global Health Research Center, Duke Kunshan University, Kunshan, Jiangsu, China. FAU - Wang, Guo-Lin AU - Wang GL AD - State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing, China. FAU - Ma, Mai-Juan AU - Ma MJ AD - State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology, Beijing, China. FAU - Gray, Gregory C AU - Gray GC AD - Division of Infectious Diseases, University of Texas, Galveston, USA. AD - Program in Emerging Infectious Diseases, Duke-NUS Medical School, Singapore. LA - eng GR - R01AI108993-01A1/AI/NIAID NIH HHS/United States PT - Journal Article PT - Research Support, N.I.H., Extramural PT - Research Support, Non-U.S. Gov't DEP - 20220901 PL - England TA - Vet Med Sci JT - Veterinary medicine and science JID - 101678837 SB - IM MH - Animals MH - *Circovirus MH - *Influenza A virus MH - *Porcine Reproductive and Respiratory Syndrome/epidemiology MH - *Porcine respiratory and reproductive syndrome virus MH - Swine MH - *Swine Diseases PMC - PMC9514493 OTO - NOTNLM OT - China OT - coinfection OT - detection OT - ecology OT - phylogeny OT - pigs OT - virus COIS- The authors declare that they have no conflicts of interest regarding the publication of this article. EDAT- 2022/09/02 06:00 MHDA- 2022/09/30 06:00 PMCR- 2022/09/01 CRDT- 2022/09/01 05:42 PHST- 2022/09/02 06:00 [pubmed] PHST- 2022/09/30 06:00 [medline] PHST- 2022/09/01 05:42 [entrez] PHST- 2022/09/01 00:00 [pmc-release] AID - VMS3869 [pii] AID - 10.1002/vms3.869 [doi] PST - ppublish SO - Vet Med Sci. 2022 Sep;8(5):1982-1992. doi: 10.1002/vms3.869. Epub 2022 Sep 1.