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1、DR.JINGYUNMA(OrcidID:0000-0001-6285-312X)Articletype:OriginalArticleRetrospectivedetectionandphylogeneticanalysisofswineacutediarrheasyndromecoronavirusinpigsinsouthernChina#1,2#1,211,2331,2L.Zhou
2、Y.Sun
3、T.Lan
4、R.T.Wu
5、J.W.Chen
6、Z.X.Wu
7、Q.M.Xie
8、X.B.*1,2,3*1,2Zhang
9、J.Y.MaArticle#Theseauthorscontri
10、butedequallytothiswork.*correspondingauthors.1CollegeofAnimalScience,SouthChinaAgriculturalUniversity,Guangzhou,China2KeyLaboratoryofAnimalHealthAquacultureandEnvironmentalControl,Guangzhou,Guangdong,China3GuangdongWen’sFoodstuffsGroupCo.,Ltd.,Guangdong,ChinaCorrespondenceX.B.Zhang,Collegeof
11、AnimalScience,SouthChinaAgriculturalUniversity,Guangzhou,China.E-mail:zhangxb@scau.edu.cnThisarticlehasbeenacceptedforpublicationandundergonefullpeerreviewbuthasnotAcceptedbeenthroughthecopyediting,typesetting,paginationandproofreadingprocess,whichmayleadtodifferencesbetweenthisversionandthe
12、VersionofRecord.Pleasecitethisarticleasdoi:10.1111/tbed.13008Thisarticleisprotectedbycopyright.Allrightsreserved.J.Y.Ma,CollegeofAnimalScience,SouthChinaAgriculturalUniversity,Guangzhou,China.E-mail:majy2400@scau.edu.cnSummarySwineacutediarrheasyndromecoronavirus(SADS-CoV),anovelcoronavirus,
13、wasfirstdiscoveredinsouthernChinainJanuary2017andcausedalargescaleoutbreakoffataldiarrhealdiseaseinpiglets.Here,weconductedaretrospectiveinvestigationof236samplesArticlefrom45swinefarmswithaclinicalhistoryofdiarrhealdiseasetoevaluatetheemergenceandthedistributionofSADS-CoVinpigsinChina.Ourre
14、sultssuggestthatSADS-CoVhasemergedinChinaatleastsinceAugust2016.Meanwhile,wedetectedaprevalenceofSADS-CoV(43.53%),porcinedeltacoronavirus(8.83%),porcineepidemicdiarrheavirus(PEDV)(78.25%),rotavirus(21.77%)andtransmissiblegastroenteritisvirus(0%),andwealsofoundtheco-infectionofSADS-CoVandPEDV
15、occurredmostfrequentlywiththerateof17.65%.Wescreenedandobtainedtwonewcompletegenomes,fiveNandfiveSgenesofSADS-CoV.PhylogeneticanalysisbasedonthesesequencesrevealedthatallSADS-CoVsequencesinthisstudyclusteredwithpreviouslyreportedSADS-CoVstrainstofo
