The risk of emerging infectious diseases(EID)is increasing globally.More than 60%of EIDs worldwide are caused by animal-borne pathogens.This study aimed to characterize the virome,analyze the phylogenetic evolution,an...The risk of emerging infectious diseases(EID)is increasing globally.More than 60%of EIDs worldwide are caused by animal-borne pathogens.This study aimed to characterize the virome,analyze the phylogenetic evolution,and determine the diversity of rodent-borne viruses in Hainan Province,China.We collected 682 anal and throat samples from rodents,combined them into 28 pools according to their species and location,and processed them for next-generation sequencing and bioinformatics analysis.The diverse viral contigs closely related to mammals were assigned to 22 viral families.Molecular clues of the important rodent-borne viruses were further identified by polymerase chain reaction for phylogenetic analysis and annotation of genetic characteristics such as arenavirus,coronavirus,astrovirus,pestivirus,parvovirus,and papillomavirus.We identified pestivirus and bocavirus in Leopoldoms edwardsi from Huangjinjiaoling,and bocavirus in Rattus andamanensis from the national nature reserves of Bangxi with low amino acid identity to known pathogens are proposed as the novel species,and their rodent hosts have not been previously reported to carry these viruses.These results expand our knowledge of viral classification and host range and suggest that there are highly diverse,undiscovered viruses that have evolved independently in their unique wildlife hosts in inaccessible areas.展开更多
Dengue virus is an arthropod-borne pathogen that is transmitted to humans primarily by Aedes spp.mosquitos,causing the acute infectious disease,dengue fever(DF).Until 2019,no dengue outbreak had been reported in Haina...Dengue virus is an arthropod-borne pathogen that is transmitted to humans primarily by Aedes spp.mosquitos,causing the acute infectious disease,dengue fever(DF).Until 2019,no dengue outbreak had been reported in Hainan Province for over 20 years.However,in early September of 2019,an increasing number of infected cases appeared and the DF outbreak lasted for over one month in Haikou City,Hainan Province.In our study,we collected 97 plasma samples from DF patients at three hospitals,as well as 1585 mosquito larvae samples from puddles in different areas of Haikou.There were 49(50.5%)plasma samples found to be strongly positive and 9(9.3%)plasma samples were weakly positive against the NS1 antigen.We discovered DENV both in the patient's plasma samples and mosquito larvae samples,and isolated the virus from C6/36 cells inoculated with the acute phase serum of patients.Phylogenetic analysis revealed that the new strains were the most closely related to the epidemic strain in the southern regions of China,belonging to lineageⅣ,genotypeⅠ,DENV-1.Compared to the seven closest strains from neighboring countries and provinces,a total of 18 amino acid mutations occurred in the coding sequences(CDS)of the new isolated strain,DENV1 HMU-HKU-2.Our data shows that dengue virus is re-emerged in Hainan,and pose new threats for public health.Thus regular molecular epidemiological surveillance is necessary for control and prevention of DENV transmission.展开更多
基金This work was supported by Key Research and Development Plan of Hainan Province(No.ZDYF2020150,and ZDYF2022SHFZ085)the National Natural Science Foundation of China(Nos.32060015,81860367 and 82060378)+7 种基金CAMS Innovation Fund for Medical Sciences(CIFMS)(grant 2021-I2M-1-037,Grant No.2021-I2M-1-039)the Major Science and Technology Program of Hainan Province(No.ZDKJ202003)the Hainan Provincial Natural Science Foundation of China(Nos.820RC628 and 2019RC218)the National Key R&D Program of China(Grant No.2022YFE0210300)the Scientific Research Foundation of the Higher Education Institutions of Hainan Province,China(No.Hnky2021-40)the Research Project of the Hainan Academician Innovation Platform(No.YSPTZX202004)the Hainan Talent Development Project(No.SRC200003)Graduate student innovation grant of Hainan Medical University(No.HYYS2020-33,Hys2020-360,Hys2020-376 and Qhys2021-356)。
文摘The risk of emerging infectious diseases(EID)is increasing globally.More than 60%of EIDs worldwide are caused by animal-borne pathogens.This study aimed to characterize the virome,analyze the phylogenetic evolution,and determine the diversity of rodent-borne viruses in Hainan Province,China.We collected 682 anal and throat samples from rodents,combined them into 28 pools according to their species and location,and processed them for next-generation sequencing and bioinformatics analysis.The diverse viral contigs closely related to mammals were assigned to 22 viral families.Molecular clues of the important rodent-borne viruses were further identified by polymerase chain reaction for phylogenetic analysis and annotation of genetic characteristics such as arenavirus,coronavirus,astrovirus,pestivirus,parvovirus,and papillomavirus.We identified pestivirus and bocavirus in Leopoldoms edwardsi from Huangjinjiaoling,and bocavirus in Rattus andamanensis from the national nature reserves of Bangxi with low amino acid identity to known pathogens are proposed as the novel species,and their rodent hosts have not been previously reported to carry these viruses.These results expand our knowledge of viral classification and host range and suggest that there are highly diverse,undiscovered viruses that have evolved independently in their unique wildlife hosts in inaccessible areas.
基金This work was supported by the Hainan Provincial Natural Science Foundation of China(Grant No.2019RC218)the National Natural Science Foundation of China(grant No.81860367,31460017)+5 种基金the Scientific Research Foundation of the Higher Education Institutions of Hainan Province,China(Grant No.Hnky2020-33)the Hainan Medical University novel coronavirus pneumonia project(Grant No.XGZX2020005)the Hainan Provincial Natural Science Foundation of China(Grant No.819QN360)State Key Laboratory of Virology 2018 Open Fund Project(2018IOV002)the National S&T Major Project"China Mega-Project for Infectious Disease"(Grant No.2018ZX10711001)the CAMS Innovation Fund for Medical Sciences(Grant No.2017-I2M-3-017).
文摘Dengue virus is an arthropod-borne pathogen that is transmitted to humans primarily by Aedes spp.mosquitos,causing the acute infectious disease,dengue fever(DF).Until 2019,no dengue outbreak had been reported in Hainan Province for over 20 years.However,in early September of 2019,an increasing number of infected cases appeared and the DF outbreak lasted for over one month in Haikou City,Hainan Province.In our study,we collected 97 plasma samples from DF patients at three hospitals,as well as 1585 mosquito larvae samples from puddles in different areas of Haikou.There were 49(50.5%)plasma samples found to be strongly positive and 9(9.3%)plasma samples were weakly positive against the NS1 antigen.We discovered DENV both in the patient's plasma samples and mosquito larvae samples,and isolated the virus from C6/36 cells inoculated with the acute phase serum of patients.Phylogenetic analysis revealed that the new strains were the most closely related to the epidemic strain in the southern regions of China,belonging to lineageⅣ,genotypeⅠ,DENV-1.Compared to the seven closest strains from neighboring countries and provinces,a total of 18 amino acid mutations occurred in the coding sequences(CDS)of the new isolated strain,DENV1 HMU-HKU-2.Our data shows that dengue virus is re-emerged in Hainan,and pose new threats for public health.Thus regular molecular epidemiological surveillance is necessary for control and prevention of DENV transmission.
