A set of RT-PCR assays for detection of all known avian paramyxoviruses and application in surveillance of avian paramyxoviruses in China
Background Avian paramyxoviruses (APMVs), also termed avian avulaviruses, are of a vast diversity and great significance in poultry. Detection of all known APMVs is challenging, and distribution of APMVs have not been well investigated. Methods A set of reverse transcription polymerase chain reactio...
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PeerJ Inc.
2021-03-01
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| Online Access: | https://peerj.com/articles/10748.pdf |
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| author | Ji-Hui Jin Jing-Jing Wang Ying-Chao Ren Shuo Liu Jin-Ping Li Guang-Yu Hou Hua-Lei Liu Qing-Ye Zhuang Su-Chun Wang Wen-Ming Jiang Xiao-Hui Yu Jian-Min Yu Li-Ping Yuan Cheng Peng Guo-Zhong Zhang Ji-Ming Chen |
| author_facet | Ji-Hui Jin Jing-Jing Wang Ying-Chao Ren Shuo Liu Jin-Ping Li Guang-Yu Hou Hua-Lei Liu Qing-Ye Zhuang Su-Chun Wang Wen-Ming Jiang Xiao-Hui Yu Jian-Min Yu Li-Ping Yuan Cheng Peng Guo-Zhong Zhang Ji-Ming Chen |
| author_sort | Ji-Hui Jin |
| collection | DOAJ |
| description | Background Avian paramyxoviruses (APMVs), also termed avian avulaviruses, are of a vast diversity and great significance in poultry. Detection of all known APMVs is challenging, and distribution of APMVs have not been well investigated. Methods A set of reverse transcription polymerase chain reaction (RT-PCR) assays for detection of all known APMVs were established using degenerate primers targeting the viral polymerase L gene. The assays were preliminarily evaluated using in-vitro transcribed double-stranded RNA controls and 24 known viruses, and then they were employed to detect 4,346 avian samples collected from 11 provinces. Results The assays could detect 20–200 copies of the double-stranded RNA controls, and detected correctly the 24 known viruses. Of the 4,346 avian samples detected using the assays, 72 samples were found positive. Of the 72 positives, 70 were confirmed through sequencing, indicating the assays were specific for APMVs. The 4,346 samples were also detected using a reported RT-PCR assay, and the results showed this RT-PCR assay was less sensitive than the assays reported here. Of the 70 confirmed positives, 40 were class I Newcastle disease virus (NDV or APMV-1) and 27 were class II NDV from poultry including chickens, ducks, geese, and pigeons, and three were APMV-2 from parrots. The surveillance identified APMV-2 in parrots for the first time, and revealed that prevalence of NDVs in live poultry markets was higher than that in poultry farms. The surveillance also suggested that class I NDVs in chickens could be as prevalent as in ducks, and class II NDVs in ducks could be more prevalent than in chickens, and class II NDVs could be more prevalent than class I NDVs in ducks. Altogether, we developed a set of specific and sensitive RT-PCR assays for detection of all known APMVs, and conducted a large-scale surveillance using the assays which shed novel insights into APMV epidemiology. |
| first_indexed | 2024-03-09T06:51:13Z |
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| institution | Directory Open Access Journal |
| issn | 2167-8359 |
| language | English |
| last_indexed | 2024-03-09T06:51:13Z |
| publishDate | 2021-03-01 |
| publisher | PeerJ Inc. |
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| spelling | doaj.art-778de67632784c2fac27c6169d49a9252023-12-03T10:26:25ZengPeerJ Inc.PeerJ2167-83592021-03-019e1074810.7717/peerj.10748A set of RT-PCR assays for detection of all known avian paramyxoviruses and application in surveillance of avian paramyxoviruses in ChinaJi-Hui Jin0Jing-Jing Wang1Ying-Chao Ren2Shuo Liu3Jin-Ping Li4Guang-Yu Hou5Hua-Lei Liu6Qing-Ye Zhuang7Su-Chun Wang8Wen-Ming Jiang9Xiao-Hui Yu10Jian-Min Yu11Li-Ping Yuan12Cheng Peng13Guo-Zhong Zhang14Ji-Ming Chen15Laboratory for Avian Disease Surveillance (OIE Reference Laboratory for Newcastle Disease), China Animal Health and Epidemiology Center, Qingdao, ChinaLaboratory for Avian Disease Surveillance (OIE Reference Laboratory for Newcastle Disease), China Animal Health and Epidemiology Center, Qingdao, ChinaDepartment for Animal Health Assessment, China Animal Health and Epidemiology Center, Qingdao, ChinaLaboratory for Avian Disease Surveillance (OIE Reference Laboratory for Newcastle Disease), China Animal Health and Epidemiology Center, Qingdao, ChinaLaboratory for Avian Disease Surveillance (OIE Reference Laboratory for Newcastle Disease), China Animal Health and Epidemiology Center, Qingdao, ChinaLaboratory for Avian Disease Surveillance (OIE Reference Laboratory for Newcastle Disease), China Animal Health and Epidemiology Center, Qingdao, ChinaLaboratory for Avian Disease Surveillance (OIE Reference Laboratory for Newcastle Disease), China Animal Health and Epidemiology Center, Qingdao, ChinaLaboratory for Avian Disease Surveillance (OIE Reference Laboratory for Newcastle Disease), China Animal Health and Epidemiology Center, Qingdao, ChinaLaboratory for Avian Disease Surveillance (OIE Reference Laboratory for Newcastle Disease), China Animal Health and Epidemiology Center, Qingdao, ChinaLaboratory for Avian Disease Surveillance (OIE Reference Laboratory for Newcastle Disease), China Animal Health and Epidemiology Center, Qingdao, ChinaLaboratory for Avian Disease Surveillance (OIE Reference Laboratory for Newcastle Disease), China Animal Health and Epidemiology Center, Qingdao, ChinaLaboratory for Avian Disease Surveillance (OIE Reference Laboratory for Newcastle Disease), China Animal Health and Epidemiology Center, Qingdao, ChinaLaboratory for Avian Disease Surveillance (OIE Reference Laboratory for Newcastle Disease), China Animal Health and Epidemiology Center, Qingdao, ChinaLaboratory for Avian Disease Surveillance (OIE Reference Laboratory for Newcastle Disease), China Animal Health and Epidemiology Center, Qingdao, ChinaKey Laboratory of Animal Epidemiology of the Ministry of Agriculture, College of Veterinary Medicine, China Agricultural University, Beijing, ChinaLaboratory for Avian Disease Surveillance (OIE Reference Laboratory for Newcastle Disease), China Animal Health and Epidemiology Center, Qingdao, ChinaBackground Avian paramyxoviruses (APMVs), also termed avian avulaviruses, are of a vast diversity and great significance in poultry. Detection of all known APMVs is challenging, and distribution of APMVs have not been well investigated. Methods A set of reverse transcription polymerase chain reaction (RT-PCR) assays for detection of all known APMVs were established using degenerate primers targeting the viral polymerase L gene. The assays were preliminarily evaluated using in-vitro transcribed double-stranded RNA controls and 24 known viruses, and then they were employed to detect 4,346 avian samples collected from 11 provinces. Results The assays could detect 20–200 copies of the double-stranded RNA controls, and detected correctly the 24 known viruses. Of the 4,346 avian samples detected using the assays, 72 samples were found positive. Of the 72 positives, 70 were confirmed through sequencing, indicating the assays were specific for APMVs. The 4,346 samples were also detected using a reported RT-PCR assay, and the results showed this RT-PCR assay was less sensitive than the assays reported here. Of the 70 confirmed positives, 40 were class I Newcastle disease virus (NDV or APMV-1) and 27 were class II NDV from poultry including chickens, ducks, geese, and pigeons, and three were APMV-2 from parrots. The surveillance identified APMV-2 in parrots for the first time, and revealed that prevalence of NDVs in live poultry markets was higher than that in poultry farms. The surveillance also suggested that class I NDVs in chickens could be as prevalent as in ducks, and class II NDVs in ducks could be more prevalent than in chickens, and class II NDVs could be more prevalent than class I NDVs in ducks. Altogether, we developed a set of specific and sensitive RT-PCR assays for detection of all known APMVs, and conducted a large-scale surveillance using the assays which shed novel insights into APMV epidemiology.https://peerj.com/articles/10748.pdfAvian paramyxovirusParrotSurveillanceEpidemiologyNewcastle disease virusDetection |
| spellingShingle | Ji-Hui Jin Jing-Jing Wang Ying-Chao Ren Shuo Liu Jin-Ping Li Guang-Yu Hou Hua-Lei Liu Qing-Ye Zhuang Su-Chun Wang Wen-Ming Jiang Xiao-Hui Yu Jian-Min Yu Li-Ping Yuan Cheng Peng Guo-Zhong Zhang Ji-Ming Chen A set of RT-PCR assays for detection of all known avian paramyxoviruses and application in surveillance of avian paramyxoviruses in China PeerJ Avian paramyxovirus Parrot Surveillance Epidemiology Newcastle disease virus Detection |
| title | A set of RT-PCR assays for detection of all known avian paramyxoviruses and application in surveillance of avian paramyxoviruses in China |
| title_full | A set of RT-PCR assays for detection of all known avian paramyxoviruses and application in surveillance of avian paramyxoviruses in China |
| title_fullStr | A set of RT-PCR assays for detection of all known avian paramyxoviruses and application in surveillance of avian paramyxoviruses in China |
| title_full_unstemmed | A set of RT-PCR assays for detection of all known avian paramyxoviruses and application in surveillance of avian paramyxoviruses in China |
| title_short | A set of RT-PCR assays for detection of all known avian paramyxoviruses and application in surveillance of avian paramyxoviruses in China |
| title_sort | set of rt pcr assays for detection of all known avian paramyxoviruses and application in surveillance of avian paramyxoviruses in china |
| topic | Avian paramyxovirus Parrot Surveillance Epidemiology Newcastle disease virus Detection |
| url | https://peerj.com/articles/10748.pdf |
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