Zhengli SHI

Title: Principal Investigator E-mail: zlshi@wh.iov.cn

Education

1987, B.S.     Genetics, Department of Biology, Wuhan University

1990, M.Sc.   Virology, Wuhan Institute of Virology, Chinese Academy of Sciences

2000, Ph.D.   Virology, University Montpellier II



Research Interests

For more than a decade, Prof Shi has been working on epidemiology and interspecies mechanism of emerging viruses of wildlife origin, especially bats and rodents. She has gained rich research experiences in discovery and characterization of viruses from bats. In the past 12 years, her research group has discovered a wild range of novel viruses or viral antibodies in bats, included coronaviruses, adenoviruses, orthoreoviruses, circoviruses, paramyxoviruses, filoviruses, hepatitis viruses, etc. Her group has highlighted findings on the animal origin of SARS-CoV. Their long-term surveillance of SARS-like coronaviruses in bat populations in China led to the new recognition of genetically diverse SARS-like coronaviruses, including strains not only sharing very high sequence similarity to SARS-CoV but also able to use the human ACE2 as an entry receptor. Their findings provide unequivocal evidence that bats are natural reservoir of SARS-CoV and reveal the origin of pandemic SARS-CoV from these bat CoVs. 



Publications

1.      Hu B, Zeng LP, Yang XL, Ge XY, Zhang W, Li B, Xie JZ, Shen XR, Zhang YZ, Wang N, Luo DS, Zheng XS, Wang MN, Daszak P, Wang LF, Cui J, Shi ZL. (2017). Discovery of a rich gene pool of bat SARS-related coronaviruses provides new insights into the origin of SARS coronavirus. PLoS Pathogens. 13(11):e1006698.

2.      Zeng LP, Ge XY, Peng C, Tai W, Jiang S, Du L, Shi ZL. (2017). Cross-neutralization of SARS coronavirus-specific antibodies against bat SARS-like coronaviruses. Sci China Life Sci. doi: 10.1007/s11427-017-9189-3.

3.      Zhang Q, Zeng LP, Zhou P, Irving AT, Li S, Shi ZL, Wang LF. (2017). IFNAR2-dependent gene expression profile induced by IFN-α in Pteropus alecto bat cells and impact of IFNAR2 knockout on virus infection. PLoS One. 12(8):e0182866.

4.      Wang B, Cai CL, Li B, Zhang W, Zhu Y, Chen WH, Zhuo F, Shi ZL, Yang XL. (2017). Detection and characterization of three zoonotic viruses in wild rodents and shrews from Shenzhen city, China. Virol Sin. 32(4):290-297.

5.      Liang J, Yang XL, Li B, Liu Q, Zhang Q, Liu H, Kan HP, Wong KC, Chek SN, He X, Peng X, Shi ZL, Wu Y, Zhang L. (2017). Detection of diverse viruses in alimentary specimens of bats in Macau. Virol Sin. 32(3):226-234.

6.      Ge XY, Yang WH, Zhou JH, Li B, Zhang W, Shi ZL, Zhang YZ. (2017). Detection of alpha- and betacoronaviruses in rodents from Yunnan, China. Virol J. 14(1):98.

7.      Tan B, Yang XL, Ge XY, Peng C, Liu HZ, Zhang YZ, Zhang LB, Shi ZL. (2017). Novel bat adenoviruses with low G+C content shed new light on the evolution of adenoviruses. J Gen Virol. 98(4):739-748.

8.      Waruhiu C, Ommeh S, Obanda V, Agwanda B, Gakuya F, Ge XY, Yang XL, Wu LJ, Zohaib A, Hu B, Shi ZL. (2017). Molecular detection of viruses in Kenyan bats and discovery of novel astroviruses, caliciviruses and rotaviruses. Virol Sin. 32(2):101-114.

9.      Wang B, Yang XL, Li W, Zhu Y, Ge XY, Zhang LB, Zhang YZ, Bock CT, Shi ZL. (2017). Detection and genome characterization of four novel bat hepadnaviruses and a hepevirus in China. Virol J. 14(1):40.

10.   Yang XL, Zhang YZ, Jiang RD, Guo H, Zhang W, Li B, Wang N, Wang L, Waruhiu C, Zhou JH, Li SY, Daszak P, Wang LF, Shi ZL. (2017). Genetically Diverse Filoviruses in Rousettus and Eonycteris spp. Bats, China, 2009 and 2015. Emerg Infect Dis. 23(3):482-486.

11.   Tan B, Wu LJ, Yang XL, Li B, Zhang W, Lei YS, Li Y, Yang GX, Chen J, Chen G, Wang HZ, Shi ZL. (2016). Isolation and characterization of adenoviruses infecting endangered golden snub-nosed monkeys (Rhinopithecus roxellana). Virol J. 13(1):190.

12.   Zeng LP, Gao YT, Ge XY, Zhang Q, Peng C, Yang XL, Tan B, Chen J, Chmura AA, Daszak P, Shi ZL. (2016). Bat SARS-like coronavirus WIV1 encodes an extra accessory protein ORFX involved in modulation of host immune response. J Virol. 90(14):6573-82.

13.   Tan B, Yang XL, Ge XY, Peng C, Zhang YZ, Zhang LB, Shi ZL. (2016). Novel bat adenoviruses with an extremely large E3 gene. J Gen Virol. 97(7):1625-35.

14.   Ge, X. Y., Yang, W. H., Pan, H., Zhou, J. H., Han, X., Zhu, G. J., Desmond, J. S., Daszak, P., Shi, Z. L. & Zhang, Y. Z. (2016). Fugong virus, a novel hantavirus harbored by the small oriental vole (Eothenomys eleusis) in China. Virology journal 13, 27.

15.   Pan, X., Cao, Z., Yuan, J., Shi, Z., Yuan, X., Lin, L., Xu, Y., Yao, J., Hao, G. & Shen, J. (2016). Isolation and Characterization of a Novel Dicistrovirus Associated with Moralities of the Great Freshwater Prawn, Macrobrachium rosenbergii. International journal of molecular sciences 17.

16.   Yang XL, Hu B, Wang B, Wang MN, Zhang Q, Zhang W, Wu LJ, Ge XY, Zhang YZ, Daszak P, Wang LF, Shi ZL. (2016). Isolation and characterization of a novel bat coronavirus closely related to the direct progenitor of SARS coronavirus. J Virol, 90(6):3253-3256.

17.   Wang MN, Zhang W, Gao YT, Hu B, Ge XY, Yang XL, Zhang YZ, Shi ZL. (2016). Longitudinal surveillance of SARS-like coronaviruses in bats by quantitative real-time PCR. Virol Sin. 31(1):78-80.

18.   Ge XY, Wang N, Zhang W, Hu B, Li B, Zhang YZ, Zhou JH, Luo CM, Yang XL, Wu LJ, Wang B, Zhang Y, Li ZX, Shi ZL. (2016). Coexistence of multiple coronaviruses in several bat colonies in an abandoned mineshaft. Virol Sin. 31(1):31-40.

19.   Shi ZL, Guo D, Rottier PJ. (2016). Coronavirus: epidemiology, genome replication and the interactions with their hosts. Virol Sin. 31(1):1-2.

20.   Yang XL, Tan B, Wang B, Li W, Wang N, Luo CM, Wang MN, Zhang W, Li B, Peng C, Ge XY, Zhang LB, Shi Z. 2015. Isolation and identification of bat viruses closely related to human, porcine, and mink orthoreoviruses. J Gen Virol. 96(12):3525-3531.

21.   Hu B, Ge X, Wang LF, Shi Z. (2015). Bat origin of human coronaviruses. Virol J. 12(1): 221

22.   Liang YZ, Wu LJ, Zhang Q, Zhou P, Wang MN, Yang XL, Ge XY, Wang LF, Shi ZL. (2015). Cloning, expression, and antiviral activity of interferon beta from the Chinese microbat, Myotis davidii. Virol Sin. 30 (6): 425-432.

23.   Wang MN, Ge XY, Wu YQ, Yang XL, Tan B, Zhang YJ, Shi ZL. (2015). Genetic diversity and temporal dynamics of phytoplankton viruses in East Lake, china. Virol Sin, 30: 290-300.

24.   Wang Y, Sun Y, Wu A, Xu S, Pan R, Zeng C, Jin X, Ge X, Shi Z, Ahola T, Chen Y, Guo D. (2015). Coronavirus nsp10/nsp16 methyltransferase can be targeted by nsp10-derived peptide in vitro and in vivo to reduce replication and pathogenesis. J Virol, 89: 8416-8427.

25.   Yang Y, Liu C, Du L, Jiang S, Shi Z, Baric RS, Li F. (2015). Two mutations were critical for bat-to-human transmission of Middle East respiratory syndrome coronavirus. J Virol, 89: 9119-9123.

26.   Menachery VD, Yount Jr BL, Debbink K, Agnihothram S, Gralinski LE, Plante JA, Graham RL, Scobey T, Ge X-Y, Donaldson EF, Randell SH, Lanzavecchia A, Marasco WA, Shi Z-L, Baric RS. (2015). A SARS-like cluster of circulating bat coronaviruses shows potential for human emergence. Nat Med 21:1508-1513.

27.   Mazet JK., Wei Q, Zhao GP, Cummings DT, Desmond JS, Rosenthal JKing CH., Cao WC, Chmura AA, Hagan EA, Zhang SY, Xiao XM, Xu JG, Shi Z, Feng F, Liu XP, Pan WQ, Zhu GJ, Zuo LY & Daszak P. (2015). Joint China-US Call for Employing a Transdisciplinary Approach to Emerging Infectious Diseases. EcoHealth, DOI: 10.1007/s10393-015-1060-1.

28.   Hu, B., Chmura, A. A., Li, J., Zhu, G., Desmond, J. S., Zhang, Y., Zhang, W., Epstein, J. H., Daszak, P. & Shi, Z. (2014). Detection of diverse novel astroviruses from small mammals in China. J Gen Virol 95, 2442-2449.

29.   Ge X-Y., Li J-L., Yang X-L., Chmura A, Epstein J. H., Hu B., Zhang W., Peng C., Zhang Y-J., Luo C-M, Tang B., Wang N., Zhu Y., Crameri G., Zhang S-Y., Wang L-F, Daszak P., Shi Z-L. (2013). First isolation and characterization of bat SARS-like Coronaviruses that use the ACE2 receptor. Nature 503(7477):535-538.

30.   Zhang, G., Cowled, C., Shi, Z., Huang, Z., Bishop-Lilly, K. A., Fang, X., Wynne, J. W., Xiong, Z., Baker, M. L., Zhao, W., Tachedjian, M., Zhu, Y., Zhou, P., Jiang, X., Ng, J., Yang, L., Wu, L., Xiao, J., Feng, Y., Chen, Y., Sun, X., Zhang, Y., Marsh, G. A., Crameri, G., Broder, C. C., Frey, K. G., Wang, L. F. & Wang, J. (2013). Comparative Analysis of Bat Genomes Provides Insight into the Evolution of Flight and Immunity. Science (New York, N.Y). Science 339 (6118):456-460. (co-first author).

31.   Wu, L., Zhou, P., Ge, X., Wang, L. F., Baker, M. L. & Shi, Z. (2013). Deep RNA sequencing reveals complex transcriptional landscape of a bat adenovirus. J Virol 87, 503-511.

32.   Shi, Z. Emerging infectious diseases associated with bat viruses. (2013). Sci China Life Sci. 56: 678–682.

33.   Zhou, P., Han, Z., Wang, L. and Shi, Z. (2013). Identification of Immunogenic Determinants of the Spike Protein of SARS-like Coronavirus. Virol Sin 28, (2):92-96.

34.   Xia, H., Wang, M., Ge, X., Wu, Y., Yang, X., Zhang, Y., Li, T. and Shi, Z. (2013). Study of the Dynamics of Microcystis aeruginosa and its Cyanophage in East Lake using quantitative PCR. Virol Sin 28 (5): 309-311.

35.   Ge, X., Wu, Y., Wang, M., Wang, J., Wu, L., Yang, X., Zhang, Y. and Shi, Z. (2013). Viral Metagenomics Analysis of Planktonic Viruses in East Lake, Wuhan, China. Virol Sin 28 (5): 280-290.

36.   Yuan, J., Zhang, Y., Li, J., Zhang, Y., Wang, L. F. & Shi, Z. (2012). Serological evidence of ebolavirus infection in bats, China. Virology journal 9, 236.

37.   Ge, X., Li, Y., Yang, X., Zhang, H., Zhou, P., Zhang, Y. & Shi, Z. (2012). Metagenomic analysis of viruses from bat fecal samples reveals many novel viruses in insectivorous bats in china. J Virol 86, 4620-4630.

38.   Yang, X., Zhang, Y., Ge, X., Yuan, J. & Shi, Z. (2012). A novel totivirus-like virus isolated from bat guano. Arch Virol, 157:1093-1099.

39.   Yuan, J., Su, N., Wang, M., Xie, P., Shi, Z. & Li, L. (2012). Down-regulation of heme oxygenase-1 by SVCV infection. Fish & shellfish immunology 32, 301-306.

40.   Zhou, P., Li, H., Wang, H., Wang, L. F. & Shi, Z. (2012). Bat severe acute respiratory syndrome-like coronavirus ORF3b homologues display different interferon antagonist activities. J Gen Virol 93, 275-281.

41.   Zhou, P., Cowled, C., Marsh, G. A., Shi, Z., Wang, L. F. and Baker, M. L. (2011). Type III IFN Receptor Expression and Functional Characterisation in the Pteropid Bat, Pteropus alecto. PloS one 6, e25385.

42.   Zhou, P., Cowled, C., Todd, S., Crameri, G., Virtue, E. R., Marsh, G. A., Klein, R., Shi, Z., Wang, L. F. and Baker, M. L. (2011). Type III IFNs in pteropid bats: differential expression patterns provide evidence for distinct roles in antiviral immunity. J Immunol 186:3138-47.

43.   Ge, X., Li, J., Peng, C., Wu, L., Yang, X., Wu, Y., Zhang, Y. and Shi, Z. (2011). Genetic diversity of novel circular ssDNA viruses in bats in China. J Gen Virol., 92:2646-53.

44.   Bai, H., Wang, Y., Li, X., Mao, H., Li, Y., Han, S., Shi, Z. and Chen, X. (2011). Isolation and characterization of a novel alphanodavirus. Virol J 8:311.

45.   Tan, Y. W., and Shi, Z. (2011). Genotyping of white spot syndrome virus in Chinese cultured shrimp during 1998-1999. Virol Sin 26:123-30.

46.   Xing, Y., and Shi, Z. (2011). Nucleocapsid protein VP15 of White spot syndrome virus colocalizes with the nucleolar proteins nucleolin and fibrillarin. Can J Microbiol., 57:759-64.

47.   Yuan, J., Marsh, G., Khetawat, D., Broder, C. C., Wang, L. F. and Shi, Z. (2011). Mutations in the G-H loop region of ephrin-B2 can enhance Nipah virus binding and infection. J Gen Virol 92:2142-52.

48.   Zhang, Y., Yuan, J., Yang, X., Zhou, J., Yang, W., Peng, C., Zhang, H. L. and Shi, Z. (2011). A novel hantavirus detected in Yunnan red-backed vole (Eothenomys miletus) in China. J Gen Virol 92:1454-7.

49.   Zhou B., Y. Li, J. Belser, M. Pearce, M. Schmolke, A. Subba, Z. Shi, S. Zaki, D. Blau, A. Sastre, T. Tumpey, D. Wentworth*. NS deletions convert the 2009-H1N1 pandemic virus into a live attenuated vaccine. Influenza and Other Respiratory Viruses. 5:388-391, 2011.

50.   Hou, Y., Peng, C., Yu, M., Li,Y., Han, Z., Wang, L-F., Li, F., Shi, Z. (2010). Bat Angiotensin Converting Enzyme-2 Displays Different Receptor Activity to Severe Acute Respiratory Syndrome Coronavirus Entry. Arch Virol 155, 1563-1569.

51.   Li, Y., Ge X., Hon C. C., Zhang H., Zhou P., Zhang Y., Wang L. F. and Shi Z. (2010). Prevalence and Genetic Diversity of Adeno-Associated Viruses in Bats, China. J Gen Virol 91: 2601-2609.

52.   Li, Y., Ge X., Zhang H., Zhou P., Zhu Y., Zhang Y., Yuan J., Wang L-F., Shi Z. (2010). Host Range, Prevalence and Genetic Diversity of Adenoviruses in Bats. J Virol 84, (8):3889-3897.

53.   Zhang Y., Zhang H., Dong X., Yuan J., Zhang H., Yang X., Zhou P., Ge X., Li Y., Wang -F, and Shi Z (2010). Hantavirus Outbreak Associated with Laboratory Rats in Yunnan, China. Infection, Genetics and Evolution (10): 638–644.

54.   Yuan, J., Hon,C. C., Li, Y., Wang, D., Xu, G., Zhang, H., Zhou, P., Poon, L. M., Lam, T. T. Leung, F. C. and Shi, Z. (2010). Intra-species Diversity of SARS-Like Coronaviruses (CoVs) in Rhinolophus sinicus and Its Implications on the Origin of SARS-CoVs in human. J Gen Virol 91(4):1058-1062.

55.   Liao, M., Cheng, K., Yang, J., Zhao, Y., Shi, Z. (2010). Assessment of UV-B damage in cyanophage PP. Aquat Microb Ecol 58: 323–328.

56.   Shi, Z. (2010) Bat and virus. Protein Cell 1(2): 109–114.

57.   Hou, Y., P., Han, Z., Zhou, P., Chen, J. and Shi, Z. Immunogenicity of the Spike Glycoprotein of Bat SARS-like Coronavirus. Virol Sinica, 2010, 25 (1):36-44.

58.   Li, H., Zheng, Z., Zhou, P., Zhang, B., Shi, Z., Hu, Q. & Wang, H. (2010). The cysteine protease domain of porcine reproductive and respiratory syndrome virus nonstructural protein 2 antagonizes IRF-3 activation. J Gen Virol 91:2974-2958.

59.   Yu, M., Tachedjian, M., Crameri, G., Shi, Z. & Wang, L. F. (2010). Identification of key amino acid residues required for horseshoe bat angiotensin-I converting enzyme 2 to function as a receptor for severe acute respiratory syndrome coronavirus. J Gen Virol 91, 1708-1712.

60.   Zhou B., Y. Li, J. Belser, M. Pearce, M. Schmolke, A. Subba, Z. Shi, S. Zaki, D. Blau, A. Sastre, T. Tumpey, D. Wentworth*. NS-based live attenuated H1N1 pandemic vaccines protect mice and ferrets. Vaccine. 28(50):8015-8025, 2010.

61.   Tang, X. C.? Li, G.? Vasilakis, N.? Zhang, Y.? Shi, Z.L? Zhong, Y.? Wang, L.F.? Zhang, S. Y. (2009) Differential stepwise evolution of SARS Coronavirus functional proteins in different host species. BMC Evol Biol 9: 52.

62.   Zhou, P., Han, Z., Wang, L.F. and Shi, Z. (2009) Immunogenicity difference between the SARS coronavirus and the bat SARS-like coronavirus spike (S) proteins. Biochem Biophys Res Commun 387(2), 326-329.

63.   Tan, Y., Xing, Y., Zhang, H., Feng, Y., Zhou, Y. and Shi, Z. (2009) Molecular detection of three shrimp viruses and genetic variation of white spot syndrome virus in Hainan province, China, in 2007. J Fish Dis, 32: 777-784.

64.   Yuan, J., Li, Y., Zhang, H., Zhou, P., Ke, Z., Zhang, Y. and Shi, Z. (2009) Indirect enzyme-linked immunosorbent assay based on the nucleocapsid protein of SARS-like coronaviruses. Virol Sinica 24 (2): 146-151.

65.   Wang, J., Zhang, H. and Shi, Z. (2008) Expression and assembly mechanism of the capsid proteins of a satellite virus (XSV) associated with Macrobrachium rosenbergii nodavirus. Virol Sinica 23 (1):73-77.

66.   Tang, Y., Shi, Z. (2008) Proteomic analyses of the shrimp white spot syndrome virus. Virol Sinica 23 (3):157-166.

67.   Bai, B., Hu, Q., Hu, H., Zhou, P., Shi, Z., Meng, J., Huang, Y., Lu, B., Mao, P., Wang, H. (2008) Virus-like particles of SARS-like coronavirus formed by membrane proteins from different origins demonstrate stimulating activity in human dendritic cells. 3(7), e2685.

68.   Li, Y., Wang, J., Hickey, A. C., Zhang, Y., Li, Y., Wu, Y., Zhang, H., Yuan, J., Han, Z., McEachern, J., Broder, C. C., Wang, L. F. and Shi, Z. (2008) Potential nipah virus infection in Chinese bats. Emerg Infect Dis 14(12):1974-1976.

69.   Wang, J., Wang, L-F. and Shi, Z. (2008) Construction of a non-infectious SARS coronavirus replicon for application in drug screening and analysis of viral protein function. Biochem Biophys Res Commun 374(1):138-142.

70.   Yu, M., Stevens, V., Berry, J. D., Crameri, G., McEachern, J., Tu, C., Shi, Z., Liang, G., Weingart, H., Cardosa, J., Eaton, B. T., Wang, L. F. (2008) Determination and application of immunodominant regions of SARS coronavirus spike and nucleocapsid proteins recognized by sera from different animal species. J Immunol Methods 331(1-2):1–12.

71.   Hon, C. C., Lam, T. Y., Shi, Z., Drummond, A. J., Yip, C. W., Zeng, F., Lam, P. Y. and Leung, F. C.. (2008) Evidence of the recombinant origin of a bat severe acute respiratory syndrome (SARS)-like coronavirus and its implications on the direct ancestor of SARS coronavirus. J Virol 82(4): 1819-1826.

72.   Ren, W., Qu, X., Li, W., Han, Z., Yu, M., Zhang, S., Wang, L. F., Deng, H., Shi, Z. (2008) Difference in receptor usage between SARS coronavirus and SARS-like coronavirus of bat origin. J Virol 82(4): 1899–1907.

73.   Shi, Z. and Hu, Z. (2008) A review of studies on animal reservoirs of the SARS coronavirus. Virus research 133:74–87.

74.   Cheng, K., Zhao, Y., Du, X., Zhang, Y., Lan, S., Shi, Z. (2007) Solar radiation-driven decay of cyanophage infectivity, and photoreactivation of the cyanophage by host cyanobacteria. Aquatic Microbial Ecology 48(1): 13-18.

75.   Cui, J., Han, N., Streicker, D., Li, G.., Tang, X., Shi, Z., Hu, Z., Zhao, G., Fontanet, A., Guan, Y., Wang, L., Jones, G., Field, H. E., Daszak, P. and Zhang, S. (2007) Evolutionary relationships among bat coronaviruses and their hosts. Emerg Infect Dis 13(10):1526-1532.

76.   Zhang, C, Yuan, J, Shi, Z. (2007) Molecular epidemiological investigation of infectious hypodermal and hematopoietic necrosis virus and taura syndrome virus in Penaeus vannamei cultured in China. Virol Sinica 22(5): 380-388.

77.   Gu, W., Yuan, J., Xu, G., Li, L., Liu, N., Zhang, C., Zhang, J. and Shi, Z. (2007) Production and characterization of monoclonal antibody of shrimp white syndrome virus envelope protein VP28. Virol Sinica 22(1): 21-25.

78.   Wang, L. F., Shi, Z., Zhang, S., Field, H., Daszak, P. and Eaton B. T. (2006) A review of bats and SARS: virus origin and genetic diversity. Emerg Infect Dis 12(12): 1834-1840.

79.   Ren, W., Li, W., Yu, M., Hao, P., Zhang, Y., Zhou, P., Zhang, S., Zhao, G., Zhong, Y., Wang, S., Wang, L. F. and Shi, Z. (2006) Full genome sequences of two SARS-like coronaviruses in horseshoe bats and genetic variation analysis. J Gen Virol 87(11): 3355-3359.

80.   Zhang, H., Wang, J., Yuan, J., Li, L., Zhang, J., Bonami, J. R. and Shi, Z. (2006) Quantitative relationship of two viruses (MrNV and XSV) in white tail disease of Macrobrachium rosenbergii de Man. Dis Aquat Org 71(1): 11-17.

81.   Li, L., Yuan, J., Cai, C., Gu, W. and Shi, Z. Multiple envelope proteins are involved in white spot syndrome virus (WSSV) infection in crayfish. Arch Virol, 2006, 151(7): 1309-1317.

82.   Li, W., Shi Z., Yu M., Ren W., Smith C., Epstein H. J., Zhang S., Wang H., Crameri G., Hu Z., Zhang H., Zhang J., Mceachern J., Field H., Daszak P., Eaton T.B. and Wang L. F. (2005) Bats are natural reservoirs of SARS-like coronaviruses. Science 310(5748): 676-679.