Genetic analysis of hantaviruses and their rodent hosts in central-south China

Virus Research

Volumn 163, Issue 2, 2012, Pages 439-447

  Liu, Jing ^a   Liu, Dong Ying ^a   Chen, Wen ^a   Li, Jin Lin ^a   Luo, Fan ^a   Li, Qing ^b   Ling, Jia Xin ^a   Liu, Yuan Yuan ^a   Xiong, Hai Rong ^a   Ding, Xiao Hua ^a   Hou, Wei ^a   Zhang, Yun ^c   Li, Shi Yue ^d   Wang, Jie ^c   Yang, Zhan Qiu ^a  

^a WUHAN UNIVERSITY   (China)

^b XIAMEN UNIVERSITY   (China)

^c BEIJING INSTITUTE OF MICROBIOLOGY AND EPIDEMIOLOGY   (China)

^d WUHAN UNIVERSITY   (China)

Author keywords

Hantavirus; Phylogeny; Rodents

Indexed keywords

ARTICLE; CHINA; GENE SEQUENCE; GENETIC ANALYSIS; GENETIC VARIABILITY; GEOGRAPHIC DISTRIBUTION; HANTAVIRUS; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PRIORITY JOURNAL; RODENT;

ANIMALS; CHINA; CLUSTER ANALYSIS; DISEASE RESERVOIRS; GENOTYPE; HANTAAN VIRUS; MOLECULAR EPIDEMIOLOGY; MOLECULAR SEQUENCE DATA; PHYLOGEOGRAPHY; RNA, VIRAL; RODENTIA; SEOUL VIRUS; SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY; VIRAL PROTEINS;

APODEMUS AGRARIUS; HANTAAN VIRUS; HANTAVIRUS; RATTUS NORVEGICUS; RODENTIA; SEOUL VIRUS;

EID: 84856555240     PISSN: 01681702     EISSN: 18727492     Source Type: Journal    
DOI: 10.1016/j.virusres.2011.11.006     Document Type: Article

References (65)

1. Alfaro M.E., Zoller S., Lutzoni F. Bayes or bootstrap? A simulation study comparing the performance of Bayesian Markov chain Monte Carlo sampling and bootstrapping in assessing phylogenetic confidence. Mol. Biol. Evol. 2003, 20(2):255-266.
2. Black W.C.t., Doty J.B., Hughes M.T., Beaty B.J., Calisher C.H. Temporal and geographic evidence for evolution of Sin Nombre virus using molecular analyses of viral RNA from Colorado, New Mexico and Montana. Virol. J. 2009, 6:102.
3. Chen H.X., Qiu F.X. Epidemiologic surveillance on the hemorrhagic fever with renal syndrome in China. Chin. Med. J. (Engl.) 1993, 106(11):857-863.
4. Chen H.X., Qiu F.X., Dong B.J., Ji S.Z., Li Y.T., Wang Y., Wang H.M., Zuo G.F., Tao X.X., Gao S.Y. Epidemiological studies on hemorrhagic fever with renal syndrome in China. J. Infect. Dis. 1986, 154(3):394-398.
5. Cohen M.S., Casals J., Hsiung G.D., Kwei H.E., Chin C.C., Ge H.C., Hsiang C.M., Lee P.W., Gibbs C.J., Gajdusek D.C. Epidemic hemorrhagic fever in Hubei Province. The People's Republic of China: a clinical and serological study. Yale J. Biol. Med. 1981, 54(1):41-55.
6. Dai D.F., Zhang H., Liu Y.Z., Huang Y.W., Gao L.D., Liu F.Q., Zeng G. Virological surveillance on hemorrhagic fever with renal syndrome in Hunan province in 2006. Zhonghua Liu Xing Bing Xue Za Zhi 2007, 28:1194-1197. (in Chinese).
7. Dekonenko A., Yakimenko V., Ivanov A., Morozov V., Nikitin P., Khasanova S., Dzagurova T., Tkachenko E., Schmaljohn C. Genetic similarity of Puumala viruses found in Finland and western Siberia and of the mitochondrial DNA of their rodent hosts suggests a common evolutionary origin. Infect. Genet. Evol. 2003, 3(4):245-257.
8. Ding X., Zhanqiu Y., Hong X., Xiaoxiang C., Fangling X., Wei H., Li W. RT-PCR amplification of Hantaan virus RNA in the blood sample and phylogenetic tree analysis of the partial M fragment. Chin. J. Microbiol. Immunol. 2003, 23:38-41. (in Chinese).
9. Fang L.Q., Wang X.J., Liang S., Li Y.L., Song S.X., Zhang W.Y., Qian Q., Li Y.P., Wei L., Wang Z.Q., Yang H., Cao W.C. Spatiotemporal trends and climatic factors of hemorrhagic fever with renal syndrome epidemic in Shandong Province, China. PLoS Negl. Trop. Dis. 2010, 4(8):e789.
10. Hall T.A. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp. Ser. 1999, (41):95-98.
11. Heyman P., Plyusnina A., Berny P., Cochez C., Artois M., Zizi M., Pirnay J.P., Plyusnin A. Seoul hantavirus in Europe: first demonstration of the virus genome in wild Rattus norvegicus captured in France. Eur. J. Clin. Microbiol. Infect. Dis. 2004, 23(9):711-717.
12. Hillis D.M., Bull J.J. An empirical test of bootstrapping as a method for assessing confidence in phylogenetic analysis. Methods Enzymol. 1993, 42(2):182-192.
13. Jiang J.F., Zhang W.Y., Wu X.M., Zhang P.H., Cao W.C. Soochong virus and Amur virus might be the same entities of hantavirus. J. Med. Virol. 2007, 79(11):1792-1795.
14. Jiang J.F., Zuo S.Q., Zhang W.Y., Wu X.M., Tang F., De Vlas S.J., Zhao W.J., Zhang P.H., Dun Z., Wang R.M., Cao W.C. Prevalence and genetic diversities of hantaviruses in rodents in Beijing, China. Am. J. Trop. Med. Hyg. 2008, 78(1):98-105.
15. Jonsson C.B., Figueiredo L.T., Vapalahti O. A global perspective on hantavirus ecology, epidemiology, and disease. Clin. Microbiol. Rev. 2010, 23(2):412-441.
16. Kang H.J., Bennett S.N., Sumibcay L., Arai S., Hope A.G., Mocz G., Song J.W., Cook J.A., Yanagihara R. Evolutionary insights from a genetically divergent hantavirus harbored by the European common mole (Talpa europaea). PLoS One 2009, 4(7):e6149.
17. Khaiboullina S.F., Morzunov S.P., St Jeor S.C. Hantaviruses: molecular biology, evolution and pathogenesis. Curr. Mol. Med. 2005, 5(8):773-790.
18. Larkin M.A., Blackshields G., Brown N.P., Chenna R., McGettigan P.A., McWilliam H., Valentin F., Wallace I.M., Wilm A., Lopez R., Thompson J.D., Gibson T.J., Higgins D.G. Clustal W and Clustal X version 2.0. Bioinformatics 2007, 23(21):2947-2948.
19. Lee H.W., Lee P.W. Korean hemorrhagic fever. I. Demonstration of causative antigen and antibodies. Korean J. Intern. Med. 1976, 19:371-383.
20. Lee P.W., Gibbs C.J., Gajdusek D.C., Hsiang C.M., Hsiung G.D. Identification of epidemic haemorrhagic fever with renal syndrome in China with Korean haemorrhagic fever. Lancet (8176) 1980, 1:1025-1026.
21. Li B., Wang Y., Zhang M.W., Chen A.G., Guo C. Basic characteristics of rodent communities in lakefront rice area of Dongting Lake. Chin. J. Eco-Agric. 2005, 13:152-155. (in Chinese).
22. Li Q., Yang Z.Q., Qu H., Xiao H. Variability of G1 gene of hantaviruses occurring in the Hubei Province, P.R. China from 1985 to 2000. Acta Virol. 2005, 49(1):51-57.
23. Liang M., Li D., Xiao S.Y., Hang C., Rossi C.A., Schmaljohn C.S. Antigenic and molecular characterization of hantavirus isolates from China. Virus Res. 1994, 31(2):219-233.
24. Librado P., Rozas J. DnaSP v5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics 2009, 25(11):1451-1452.
25. Mantooth S.J., Milazzo M.L., Bradley R.D., Hice C.L., Ceballos G., Tesh R.B., Fulhorst C.F. Geographical distribution of rodent-associated hantaviruses in Texas. J. Vector Ecol. 2001, 26(1):7-14.
26. Martin D.P., Williamson C., Posada D. RDP2: recombination detection and analysis from sequence alignments. Bioinformatics 2005, 21(2):260-262.
27. Morzunov S.P., Rowe J.E., Ksiazek T.G., Peters C.J., St Jeor S.C., Nichol S.T. Genetic analysis of the diversity and origin of hantaviruses in Peromyscus leucopus mice in North America. J. Virol. 1998, 72(1):57-64.
28. Nemirov K., Henttonen H., Vaheri A., Plyusnin A. Phylogenetic evidence for host switching in the evolution of hantaviruses carried by Apodemus mice. Virus Res. 2002, 90(1-2):207-215.
29. Nemirov K., Leirs H., Lundkvist A., Olsson G.E. Puumala hantavirus and Myodes glareolus in northern Europe: no evidence of co-divergence between genetic lineages of virus and host. J. Gen. Virol. 2010, 91(Pt 5):1262-1274.
30. Plyusnin A. Genetics of hantaviruses: implications to taxonomy. Arch. Virol. 2002, 147(4):665-682.
31. Plyusnin A., Morzunov S.P. Virus evolution and genetic diversity of hantaviruses and their rodent hosts. Curr. Top. Microbiol. Immunol. 2001, 256:47-75.
32. Plyusnin A., Vapalahti O., Vaheri A. Hantaviruses: genome structure, expression and evolution. J. Gen. Virol. 1996, 77(Pt 11):2677-2687.
33. Posada D. jModelTest: phylogenetic model averaging. Mol. Biol. Evol. 2008, 25(7):1253-1256.
34. Ramsden C., Holmes E.C., Charleston M.A. Hantavirus evolution in relation to its rodent and insectivore hosts: no evidence for codivergence. Mol. Biol. Evol. 2009, 26(1):143-153.
35. Razzauti M., Plyusnina A., Sironen T., Henttonen H., Plyusnin A. Analysis of Puumala hantavirus in a bank vole population in northern Finland: evidence for co-circulation of two genetic lineages and frequent reassortment between strains. J. Gen. Virol. 2009, 90(Pt 8):1923-1931.
36. Schmaljohn C., Hjelle B. Hantaviruses: a global disease problem. Emerg. Infect. Dis. 1997, 3(2):95-104.
37. Schmidt-Chanasit J., Essbauer S., Petraityte R., Yoshimatsu K., Tackmann K., Conraths F.J., Sasnauskas K., Arikawa J., Thomas A., Pfeffer M., Scharninghausen J.J., Splettstoesser W., Wenk M., Heckel G., Ulrich R.G. Extensive host sharing of central European Tula virus. J. Virol. 2010, 84(1):459-474.
38. Shi X., McCaughey C., Elliott R.M. Genetic characterisation of a Hantavirus isolated from a laboratory-acquired infection. J. Med. Virol. 2003, 71(1):105-109.
39. Sun L., Zhang Y.Z., Li L.H., Zhang Y.P., Zhang A.M., Hao Z.Y., Sun J.W., Chen H.X. Genetics subtypes and distribution of Seoul virus in Henan. Zhonghua Liu Xing Bing Xue Za Zhi 2005, 26:578-582. (in Chinese).
40. Swofford D. PAUP beta version. Phylogenetic Analysis Using Parsimony and Other Methods 2002, Sinauer Associates, Sunderland, MA.
41. Tamura K., Peterson D., Peterson N., Stecher G., Nei M., Kumar S. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol. Biol. Evol. 2011, 10.1093/molbev/msr121.
42. Torres-Perez F., Palma R.E., Hjelle B., Ferres M., Cook J.A. Andes virus infections in the rodent reservoir and in humans vary across contrasting landscapes in Chile. Infect. Genet. Evol. 2010, 10(6):820-825.
43. Wang H., Yoshimatsu K., Ebihara H., Ogino M., Araki K., Kariwa H., Wang Z., Luo Z., Li D., Hang C., Arikawa J. Genetic diversity of hantaviruses isolated in china and characterization of novel hantaviruses isolated from Niviventer confucianus and Rattus rattus. Virology 2000, 278(2):332-345.
44. Wang Z., Luo Z.Z., Liu G.Z. Study on the Geographic Epidemiological Charactristics of Epidemic Hemorrhag in China 1990, Beijing Science and Technology Press, Beijing, (in Chinese).
45. Wu X.Z., Deng X., Zheng L.P. Late Pleistocene fauna at Yang'er cave in Hunan Province. Quaternary Sci. 2008, 28:1114-1127. (in Chinese).
46. Xiao S.Y., Leduc J.W., Chu Y.K., Schmaljohn C.S. Phylogenetic analyses of virus isolates in the genus Hantavirus, family Bunyaviridae. Virology 1994, 198(1):205-217.
47. Xiao S.Y., Liang M., Schmaljohn C.S. Molecular and antigenic characterization of HV114, a hantavirus isolated from a patient with haemorrhagic fever with renal syndrome in China. J. Gen. Virol. 1993, 74(Pt 8):1657-1659.
48. Xiong H.P., Li M.H., Zhu Y., Duan Z.X., Tian J.H., Chen H.X., Zhang Y.Z. Molecular epidemiology of hantavirus carried by rodent hosts in Wuhan, Hubei province. China Trop. Med. 2010, 10:658-660. (in Chinese).
49. Xu F., Yang Z., Wang L., Lee Y.L., Yang C.C., Xiao S.Y., Xiao H., Wen L. Morphological characterization of hantavirus HV114 by electron microscopy. Intervirology 2007, 50(3):166-172.
50. Xu F.L., Yang Z.Q., Yang C.C., Xiao S.Y., Xiao H., Wen L. Serological characterization of a hantavirus from Hubei, China. Acta Virol. 2004, 48(1):5-8.
51. Yang F., Guli B., Liu J.J., Yang H., Zhang X.L., He J.F., Liang Z.N., Zhang S.X., Yao P.P., Weng J.Q., He Y.Q. Surveillance on natural infection of rodents with hantavirus in Shenzhen city and identification of a hantavirus strain SZ2083. Zhonghua Liu Xing Bing Xue Za Zhi 2006, 27:981-984. (in Chinese).
52. Yoshimatsu K., Arikawa J., Tamura M., Yoshida R., Lundkvist A., Niklasson B., Kariwa H., Azuma I. Characterization of the nucleocapsid protein of Hantaan virus strain 76-118 using monoclonal antibodies. J. Gen. Virol. 1996, 77(Pt 4):695-704.
53. Yoshimatsu K., Lee B.H., Araki K., Morimatsu M., Ogino M., Ebihara H., Arikawa J. The multimerization of hantavirus nucleocapsid protein depends on type-specific epitopes. J. Virol. 2003, 77(2):943-952.
54. Zhang F.L., Wu X.A., Luo W., Bai W.T., Liu Y., Yan Y., Wang H.T., Xu Z.K. The expression and genetic immunization of chimeric fragment of Hantaan virus M and S segments. Biochem. Biophys. Res. Commun. 2007, 354(4):858-863.
55. Zhang M.W., Guo C., Wang Y., Li B., Chen A.G. Impact of rodent pests in the sustainable development of agriculture in the middle and lower reaches of Yangtze River and counterstrategy. Zhong Guo Nong Ye Ke Xue 2003, 36:223-227. (in Chinese).
56. Zhang Y., Zhang H., Dong X., Yuan J., Yang X., Zhou P., Ge X., Li Y., Wang L.F., Shi Z. Hantavirus outbreak associated with laboratory rats in Yunnan, China. Infect. Genet. Evol. 2010, 10(5):638-644.
57. Zhang Y.Z., Dong X., Li X., Ma C., Xiong H.P., Yan G.J., Gao N., Jiang D.M., Li M.H., Li L.P., Zou Y., Plyusnin A. Seoul virus and hantavirus disease, Shenyang, People's Republic of China. Emerg. Infect. Dis. 2009, 15(2):200-206.
58. Zhang Y.Z., Lin X.D., Shi N.F., Wang W., Liao X.W., Guo W.P., Fan F.N., Huang X.M., Li M.H., Li M.F., Chen Y., Chen X.P., Wang S.B., Fu Z.F., Plyusnin A. Hantaviruses in small mammals and humans in the coastal region of Zhejiang Province, China. J. Med. Virol. 2010, 82(6):987-995.
59. Zhang Y.Z., Zhang F.X., Wang J.B., Zhao Z.W., Li M.H., Chen H.X., Zou Y., Plyusnin A. Hantaviruses in rodents and humans, Inner Mongolia Autonomous Region, China. Emerg. Infect. Dis. 2009, 15(6):885-891.
60. Zhang Y.Z., Zou Y., Fu Z.F., Plyusnin A. Hantavirus infections in humans and animals, China. Emerg. Infect. Dis. 2010, 16(8):1195-1203.
61. Zhou J.H., Zhang H.L., Wang J.L., Yang W.H., Mi Z.Q., Zhang Y.Z., Song X.Y., Hu Q.L., Dong Y.K., Pu W.H., Hu H.M., Gao L.F., Yuan Q.H., Ya H.X., Feng Y. Survey on host animal and molecular epidemiology of hantavirus in Chuxiong prefecture, Yunnan province. Zhonghua Liu Xing Bing Xue Za Zhi 2009, 30:239-242. (in Chinese).
62. Zou Y., Hu J., Wang Z.X., Wang D.M., Li M.H., Ren G.D., Duan Z.X., Fu Z.F., Plyusnin A., Zhang Y.Z. Molecular diversity and phylogeny of Hantaan virus in Guizhou, China: evidence for Guizhou as a radiation center of the present Hantaan virus. J. Gen. Virol. 2008, 89(Pt 8):1987-1997.
63. Zou Y., Hu J., Wang Z.X., Wang D.M., Yu C., Zhou J.Z., Fu Z.F., Zhang Y.Z. Genetic characterization of hantaviruses isolated from Guizhou, China: evidence for spillover and reassortment in nature. J. Med. Virol. 2008, 80(6):1033-1041.
64. Zou Y., Wang J.B., Gaowa H.S., Yao L.S., Hu G.W., Li M.H., Chen H.X., Plyusnin A., Shao R., Zhang Y.Z. Isolation and genetic characterization of hantaviruses carried by Microtus voles in China. J. Med. Virol. 2008, 80(4):680-688.
65. Zuo S.Q., Zhang P.H., Jiang J.F., Zhan L., Wu X.M., Zhao W.J., Wang R.M., Tang F., Dun Z., Cao W.C. Seoul virus in patients and rodents from Beijing, China. Am. J. Trop. Med. Hyg. 2008, 78(5):833-837.