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.        Chen, J., Hu, B.J., Zhao, K., Luo, Y., Lin, H.F., Shi, Z.L*. (2021). Development of a MERS-CoV Replicon Cell Line for Antiviral Screening. Virol Sin, 1-6.


2.        Wang, D., Jiang, A., Feng, J., Li, G., Guo, D., Sajid, M., Wu, K., Zhang, Q., Ponty, Y., Will, S., Liu, F., Yu, X., Li, S., Liu, Q., Yang, X-L., Guo, M., Li,X., Chen, M., Shi, Z-L., Lan, K.*, Chen, Y.,*, Zhou, Y*. (2021). The SARS-CoV-2 Subgenome Landscape and its Novel Regulatory Features. Molecular Cell, doi.org/10.1016/j.molcel.2021.02.036.


3.        Hu, B.#, Guo, H.#, Zhou, P., Shi, Z.L*. (2021). Characteristics of SARS-CoV-2 and COVID-19. Nat Rev Microbiol, 19(3):141-154.


4.        Li, A.#, Ling, Y.#, Song, Z.Q.#, Cheng, X.B., Ding, L.F., Jiang, R.D., Fu, W.H., Liu, Y., Hu, H.L., Yuan, S.H., Chen, J., Zhu, C.S., Fan, J., Wang, J., Jin, Y.L., Zhang, M.M., Zhu, L.Y., Sun, P., Zhang, L.X., Qin, R., Zhang, W., Qiu, C.L., Shen, Y.Z., Zhang, L., Shi, Z.L., Zhao, C., Zhu, T.Y.*, Lu, H.Z.*, Zhang, X.Y.*, Xu, J.Q*. (2020). Early plasma IL-37 responses accompanied with low inflammatory cytokines correlate with benign clinical outcomes during SARS-CoV-2 infection. J Infect Dis, 223(4):568–580.


5.        Zhou, P., Shi, Z.L*. (2021). SARS-CoV-2 spillover events. Science, 371(6525):120-122.


6.        Luo, D.S., Li, B., Shen, X.R., Jiang, R.D., Zhu, Y., Wu, J., Fan, Y., Bourhy, H., Hu, B., Ge, X.Y., Shi, Z.L.*, Dacheux, L*. (2021). Characterization of Novel Rhabdoviruses in Chinese Bats. Viruses-Basel, 13(1):64.


7.        Wang, Z-J.#, Zhang, H-J.#, Lu, J.#, Xu, K-W.#, Peng, C.#, Guo, J.#, Gao, X-X.#, Wan, X.#, Wang, W-H.#, Shan, C., Zhang, S-C., Wu, J., Yang, A-N., Zhu, Y., Xiao, A., Zhang, L., Fu, L., Si, H-R., Cai, Q., Yang, X-L., You, L., Zhou, Y-P., Liu, J., Pang, D-Q., Jin, W-P., Zhang, X-Y., Meng, S-L., Sun, Y-X., Desselberger, U., Wang, J-Z., Li, X-G., Duan, K., Li, C-G.*, Xu, M.*, Shi, Z-L.*, Yuan, Z-M.*, Yang, X-M.*, Shen, S*. (2020). Low toxicity and high immunogenicity of an inactivated vaccine candidate against COVID-19 in different animal models. Emerg Microbes Infect, 9(1):2606-2618.


8.        Zhang, Q.#, Zhang, H.#, Gao, J.#, Huang, K., Yang, Y., Hui, X., He, X., Li, C., Gong, W., Zhang, Y., Zhao, Y., Peng, C., Gao, X., Chen, H., Zou, Z.*, Shi, Z.L.*, Jin, M*. (2020). A serological survey of SARS-CoV-2 in cat in Wuhan. Emerg Microbes Infect, 9(1):2013-2019.


9.        Jiang, R.D., Li, B., Liu, X.L., Liu, M.Q., Chen, J., Luo, D.S., Hu, B.J., Zhang, W., Li, S.Y., Yang, X.L.*, Shi, Z.L*. (2020). Bat mammalian orthoreoviruses cause severe pneumonia in mice. Virology, 551:84-92.


10.    Luo, Y.#, Chen, Y.#, Geng, R., Li, B., Chen, J., Zhao, K., Zheng, X.S., Zhang, W., Zhou, P., Yang, X.L., Shi, Z.L*. (2020). Broad Cell Tropism of SADS-CoV In Vitro Implies Its Potential Cross-Species Infection Risk. Virol Sin, 1-5.


11.    Guo, H.#, Hu, B.J.#, Yang, X.L., Zeng, L.P., Li, B., Ouyang, S., Shi, Z.L*. (2020). Evolutionary Arms Race between Virus and Host Drives Genetic Diversity in Bat Severe Acute Respiratory Syndrome-Related Coronavirus Spike Genes. J Virol, 94(20):e00902-20.


12.    Latinne, A.#, Hu, B.#, Olival, K.J., Zhu, G., Zhang, L., Li, H., Chmura, A.A., Field, H.E., Zambrana-Torrelio, C., Epstein, J.H., Li, B., Zhang, W., Wang, L.F., Shi, Z.L.*, Daszak, P*. (2020). Origin and cross-species transmission of bat coronaviruses in China. Nat Commun, 11(1):4235.


13.    Shan, C.#*, Yao, Y.F.#, Yang, X.L.#, Zhou, Y.W.#, Gao, G., Peng, Y., Yang, L., Hu, X., Xiong, J., Jiang, R.D., Zhang, H.J., Gao, X.X., Peng, C., Min, J., Chen, Y., Si, H.R., Wu, J., Zhou, P., Wang, Y.Y., Wei, H.P., Pang, W., Hu, Z.F., Lv, L.B., Zheng, Y.T., Shi, Z.L.*, Yuan, Z.M*. (2020). Infection with novel coronavirus (SARS-CoV-2) causes pneumonia in Rhesus macaques. Cell Res, 30(8):670-677.


14.    Wang, C.#*, Xie, J.#, Zhao, L.#, Fei, X.#, Zhang, H.#, Tan, Y.#, Nie, X.#, Zhou, L.#, Liu, Z.#, Ren, Y., Yuan, L., Zhang, Y., Zhang, J., Liang, L., Chen, X., Liu, X., Wang, P., Han, X., Weng, X., Chen, Y., Yu, T., Zhang, X., Cai, J.*, Chen, R.*, Shi, Z.L.*, Bian, X.W*. (2020). Alveolar macrophage dysfunction and cytokine storm in the pathogenesis of two severe COVID-19 patients. EbioMedicine, 57:102833.


15.    Jiang, R.D.#, Liu, M.Q.#, Chen, Y.#, Shan, C., Zhou, Y.W., Shen, X.R., Li, Q., Zhang, L., Zhu, Y., Si, H.R., Wang, Q., Min, J., Wang, X., Zhang, W., Li, B., Zhang, H.J., Baric, R.S., Zhou, P., Yang, X.L.*, Shi, Z.L*. (2020). Pathogenesis of SARS-CoV-2 in Transgenic Mice Expressing Human Angiotensin-Converting Enzyme 2. Cell, 182(1):50-58.e8.


16.    Yi, C.#, Sun, X.#, Ye, J.#, Ding, L., Liu, M., Yang, Z., Lu, X., Zhang, Y., Ma, L., Gu, W., Qu, A., Xu, J., Shi, Z.L.*, Ling, Z.*, Sun, B*. (2020). Key residues of the receptor binding motif in the spike protein of SARS-CoV-2 that interact with ACE2 and neutralizing antibodies. Cell Mol Immunol, 17(6):621-630.


17.    Jin, Z.#, Du, X.#, Xu, Y.#, Deng, Y.#, Liu, M.#, Zhao, Y., Zhang, B., Li, X., Zhang, L., Peng, C., Duan, Y., Yu, J., Wang, L., Yang, K., Liu, F., Jiang, R., Yang, X., You, T., Liu, X., Yang, X., Bai, F., Liu, H., Liu, X., Guddat, L.W., Xu. W., Xiao, G., Qin, C., Shi, Z.L., Jiang, H.*, Rao, Z.*, Yang, H*. (2020). Structure of M pro from SARS-CoV-2 and discovery of its inhibitors. Nature, 582(7811):289-293.


18.    Duan, K.#, Liu, B.#, Li, C.#, Zhang, H.#, Yu, T.#, Qu, J.#, Zhou, M.#, Chen, L.#, Meng, S., Hu, Y., Peng, C., Yuan, M., Huang, J., Wang, Z., Yu, J., Gao, X., Wang, D., Yu, X., Li, L., Zhang, J., Wu, X., Li, B., Xu, Y., Chen, W., Peng, Y., Hu, Y., Lin, L., Liu, X., Huang, S., Zhou, Z., Zhang, L., Wang, Y., Zhang, Z., Deng, K., Xia, Z., Gong, Q., Zhang, W., Zheng, X., Liu, Y., Yang, H., Zhou, D., Yu, D., Hou, J., Shi, Z.L., Chen, S., Chen, Z.*, Zhang, X.*, Yang, X*. (2020). Effectiveness of convalescent plasma therapy in severe COVID-19 patients. Proc Natl Acad Sci U S A, 117(17):9490-9496.


19.    Zohaib, A., Saqib, M., Athar, M.A., Hussain, M.H., Sial, A.U.R., Tayyab, M.H., Batool, M., Sadia, H., Taj, Z., Tahir, U., Jakhrani, M.Y., Tayyab, J., Kakar, M.A., Shahid, M.F., Yaqub, T., Zhang, J.Y., Wu, Q.L., Deng, F., Corman, V.M., Shen, S., Khan, I., Shi, Z.L*. (2020). Crimean-Congo Hemorrhagic Fever Virus in Humans and Livestock, Pakistan, 2015-2017. Emerg Infect Dis, 26(4):773-777.


20.    Zhou, P.#, Yang, X.L.#, Wang, X.G.#, Hu, B., Zhang, L., Zhang, W., Si, H.R., Zhu, Y., Li, B., Huang, C.L., Chen, H.D., Chen, J., Luo, Y., Guo, H., Jiang, R.D., Liu, M.Q., Chen, Y., Shen, X.R., Wang, X., Zheng, X.S., Zhao, K., Chen, Q.J., Deng, F., Liu, L.L., Yan, B., Zhan, F.X., Wang, Y.Y., Xiao, G.F., Shi, Z.L*. (2020). A pneumonia outbreak associated with a new coronavirus of probable bat origin. Nature, 579(7798):270-273.


21.    Jiang, S., Shi, Z.L., Shu, Y., Song, J., Gao, G.F., Tan, W., Guo, D*. (2020). A distinct name is needed for the new coronavirus. Lancet, 395(10228):949.


22.    Zhang, W.#, Du, R.H.#, Li, B., Zheng, X.S., Yang, X.L., Hu, B., Wang, Y.Y., Xiao, G.F., Yan, B., Shi, Z.L.*, Zhou, P*. (2020). Molecular and serological investigation of 2019-nCoV infected patients: implication of multiple shedding routes. Emerg Microbes Infect, 9(1):386-389.


23.    Li, B.#, Si, H.R.#, Zhu, Y., Yang, X.L., Anderson, D.E., Shi, Z.L., Wang, L.F.*, Zhou, P*. (2020). Discovery of Bat Coronaviruses through Surveillance and Probe Capture-Based Next-Generation Sequencing. mSphere, 5(1):pii: e00807-19.


24.    Huang, Y., Wang, X., Yang, J., Lu, S., Lai, X.H., Jin, D., Pu, J., Huang, Y., Ren, Z., Zhu, W., Liang, H., Zhou, P., Shi, Z.L.*, Xu, J*. (2020). Apibacter raozihei sp. nov. isolated from bat feces of Hipposideros and Taphozous spp. Int J Syst Evol Microbiol, 70(1):611-617.


25.    Onyuok, S.O.#, Hu, B.#, Li, B., Fan, Y., Kering, K., Ochola, G.O., Zheng, X.S., Obanda, V., Ommeh, S., Yang, X.L., Agwanda, B.*, Shi, Z.L*. (2019). Molecular Detection and Genetic Characterization of Novel RNA Viruses in Wild and Synanthropic Rodents and Shrews in Kenya. Front Microbiol, 10:2696.


26.    Zhang, W.#, Zheng, X.S.#, Agwanda, B.#, Ommeh, S.#, Zhao, K., Lichoti, J., Wang, N., Chen, J., Li, B., Yang, X.L., Mani, S., Ngeiywa, K.J., Zhu, Y., Hu, B., Onyuok, S.O., Yan, B., Anderson, D.E., Wang, L.F., Zhou, P.*, Shi, Z.L*. (2019). Serological evidence of MERS-CoV and HKU8-related CoV co-infection in Kenyan camels. Emerg Microbes Infect, 8(1):1528-1534.


27.    Wang, N.#, Luo, C.M.#, Liu, H.Z., Yang, X.L., Hu, B., Zhang, W., Li, B., Zhu, Y., Zhu, G.J., Shen, X.R., Peng, C., Shi, Z.L*. (2019). Characterization of a New Member of Alphacoronavirus with Unique Genomic Features in Rhinolophus bats. Viruses-Basel, 11(4):379.


28.    Fan, Y., Zhao, K., Shi, Z.L., Zhou, P*. (2019). Bat Coronaviruses in China. Viruses-Basel, 11(3):210.


29.    Yang, X.L.#, Tan, C.W.#, Anderson, D.E., Jiang, R.D., Li, B., Zhang, W., Zhu, Y., Lim, X.F., Zhou, P., Liu, X.L., Guan, W., Zhang, L., Li, S.Y., Zhang, Y.Z., Wang, L.F.*, Shi, Z.L*. (2019). Characterization of a filovirus (Měnglà virus) from Rousettus bats in China. Nat Microbiol, 4(3):390-395.


30.    Cui, J., Li, F., Shi, Z.L*. (2019). Origin and evolution of pathogenic coronaviruses. Nat Rev Microbiol, 17(3):181-192.


31.    Wang, J.X.#, Yang, X.L.#, Liu, H.Z, Wang, L., Zhou, J.H., Han, X., Zhu, Y., Yang, W.H., Pan, H., Zhang, Y.Z.*, Shi, Z.L*. (2019). Prevalence of Wēnzhōu virus in small mammals in Yunnan Province, China. PLoS Negl Trop Dis, 13(2):e0007049.


32.    Ommeh, S.#, Zhang, W.#, Zohaib, A.#, Chen, J.#, Zhang, H., Hu, B., Ge, X.Y., Yang, X.L., Masika, M., Obanda, V., Luo, Y., Li, S., Waruhiu, C., Li, B., Zhu, Y., Ouma, D., Odendo, V., Wang, L.F., Anderson, D.E., Lichoti, J., Mungube, E., Gakuya, F., Zhou, P., Ngeiywa, K.J., Yan, B., Agwanda, B.*, Shi, Z.L*. (2018). Genetic Evidence of Middle East Respiratory Syndrome Coronavirus (MERS-CoV) and Widespread Seroprevalence among Camels in Kenya. Virol Sin, 33(6):484-492.


33.    Zohaib, A., Saqib, M., Athar, M.A., Chen, J., Sial, A.U., Khan, S., Taj, Z., Sadia, H., Tahir, U., Tayyab, M.H., Qureshi, M.A., Mansoor, M.K., Naeem, M.A., Hu, B.J., Khan, B.A., Ujjan, I.D., Li, B., Zhang, W., Luo, Y., Zhu, Y., Waruhiu, C., Khan, I., Yang, X.L., Sajid, M.S., Corman, V.M., Yan, B., Shi, Z.L*. (2018). Countrywide Survey for MERS-Coronavirus Antibodies in Dromedaries and Humans in Pakistan. Virol Sin, 33(5):410-417.


34.    Luo, C-M., Wang N., Yang, X-L., Liu, H-Z., Zhang, W., Li, B., Hu, B., Peng, C., Geng, Q-B., Zhu, G-J., Li, F.*, Shi, Z-L*. (2018). Discovery of Novel Bat Coronaviruses in South China That Use the Same Receptor as Middle East Respiratory Syndrome Coronavirus. J Virol, 92(13):e00116-18.


35.    Zhou, P.#, Fan, H.#, Lan, T.#, Yang, X-L, Shi, W-F, Zhang, W., Zhu. Y., Zhang, Y-W., Xie, Q-M., Mani, S., Zheng, X-S., Li, B., Li, J-M., Guo, H., Pei, G-Q., An, X-P., Chen J-W., Zhou, L., Mai, K-J., Wu, Z-X., Li, D., Anderson, D.E., Zhang, L-B., Li, S-Y., Mi, Z-Q., He, T-T., Cong, F., Guo, P-J., Huang, R., Luo, Y., Liu, X-L., Chen, J., Huang, Y., Sun, Q., Zhang, X-L-L., Wang, Y-Y., Xing, S-Z., Chen, Y-S., Sun, Y., Li, J., Daszak, P.*, Wang, L-F.*, Shi, Z-L.*, Tong, Y-G.*, Ma, J-Y*. (2018). Fatal swine acute diarrhoea syndrome caused by an HKU2-related coronavirus of bat origin. Nature, 556(7700):255-258.


36.    Xie, J., Li, Y., Shen, X., Goh, G., Zhu, Y., Cui, J., Wang, L-F., Shi, Z.L.*, Zhou, P*. (2018). Dampened STING-Dependent Interferon Activation in Bats. Cell Host Microbe, 23(3):297-301.


37.    Wang, N., Li, S-Y., Yang, X-L., Huang, H-M., Zhang, Y-J., Guo, H., Luo, C-M., Miller, M., Zhu, G., Chmura, A.A., Hagan, E., Zhou, J-H., Zhang, Y-Z., Wang, L-F., Daszak, P., Shi, Z-L*. (2018). Serological Evidence of Bat SARS-Related Coronavirus Infection in Humans, China. Virol Sin, 33(1):104-107.


38.    Luo, Y., Li, B., Jiang, R-D., Hu, B-J., Luo, D-S., Zhu, G-J., Hu, B., Liu, H-Z., Zhang, Y-Z., Yang, X-L., Shi, Z-L*. (2018). Longitudinal Surveillance of Betacoronaviruses in Fruit Bats in Yunnan Province, China during 2009-2016. Virol Sin, 33(1):87-95.


39.    Zeng, L.P., Ge, X.Y., Peng, C., Tai, W.B., Jiang, S.B., Du, L.Y.*, Shi, Z.L*. (2017). Cross-neutralization of SARS coronavirus-specific antibodies against bat SARS-like coronaviruses. Sci China Life Sci, 60(12):1399-1402.


40.    Hu, B.#, Zeng, L.P.#, Yang, X.L.#, Ge, X.Y., Zhang, W., Li, B., Xie, J.Z., Shen, X.R., Zhang, Y.Z., Wang, N., Luo, D.S., Zheng, X.S., Wang, M.N., Daszak, P., Wang, L.F., Cui, J.*, Shi, Z.L*. (2017). Discovery of a rich gene pool of bat SARS-related coronaviruses provides new insights into the origin of SARS coronavirus. PLoS Pathog, 13(11):e1006698.


41.    Zhang, Q., Zeng, L.P., Zhou, P., Irving, A.T., Li, S., Shi, Z.L.*, Wang, L.F. (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.


42.    Ge, X.Y., Yang, W.H., Zhou, J.H., Li, B., Zhang, W., Shi, Z.L.*, Zhang, Y.Z*. (2017). Detection of alpha- and betacoronaviruses in rodents from Yunnan, China. Virol J, 14:98.


43.    Tan, B., Yang, X.L., Ge, X.Y., Peng, C., Liu, H.Z., Zhang, Y.Z., Zhang, L.B., Shi, Z.L*. (2017). Novel bat adenoviruses with low G+C content shed new light on the evolution of adenoviruses. J Gen Virol, 98(4):739-748.


44.    Waruhiu, C., Ommeh, S.*, Obanda, V., Agwanda, B., Gakuya, F., Ge, X.Y., Yang, X.L., Wu, L.J., Zohaib, A., Hu, B., Shi, Z.L*. (2017). Molecular detection of viruses in Kenyan bats and discovery of novel astroviruses, caliciviruses and rotaviruses. Virol Sin, 32(2):101-114.


45.    Yang, X.L.#, Zhang, Y.Z.#, Jiang, R.D.#, Guo, H., Zhang, W., Li, B., Wang, N., Wang, L., Waruhiu, C., Zhou, J.H., Li, S.Y., Daszak, P., Wang, L.F. & Shi, Z.L*. (2017). Genetically Diverse Filoviruses in Rousettus and Eonycteris spp. Bats, China, 2009 and 2015. Emerg Infect Dis, 23(3):482-486.


46.    Wang, B., Yang, X.L., Li, W., Zhu, Y., Ge, X.Y., Zhang, L.B., Zhang, Y.Z., Bock, C.T., Shi, Z.L*. (2017). Detection and genome characterization of four novel bat hepadnaviruses and a hepevirus in China. Virol J, 14(1):40.


47.    Tan, B., Wu, L.J., Yang, X.L., Li, B., Zhang, W., Lei, Y.S., Yang, G.X., Chen, J., Chen, G., Wang, H.Z., Shi, Z.L*. (2016). Isolation and characterization of adenoviruses infecting endangered golden snub-nosed monkeys (Rhinopithecus roxellana). Virol J, 13:190.


48.    Zeng, L.P., Gao, Y.T., Ge, X.Y., Zhang, Q., Peng, C., Yang, X.L., Tan, B., Chen, J., Chmura, A.A., Daszak, P. & Shi, Z.L*. (2016). Bat Severe Acute Respiratory Syndrome-Like Coronavirus WIV1 Encodes an Extra Accessory Protein, ORFX, Involved in Modulation of the Host Immune Response. J Virol, 90(14): 6573-6582.


49.    Tan, B., Yang, X.L., Ge, X.Y., Peng, C., Zhang, Y.Z., Zhang, L.B. & Shi, Z.L*. (2016). Novel bat adenoviruses with an extremely large E3 gene. J Gen Virol, 97(7):1625-1635.


50.    Yang, X-L., Hu, B., Wang, B., Wang, M-N., Zhang, Q., Zhang, W., Wu, L-J., Ge, X-Y., Zhang, Y-Z., Daszak, P., Wang, L-F. & Shi, Z-L*. (2016). Isolation and Characterization of a Novel Bat Coronavirus Closely Related to the Direct Progenitor of Severe Acute Respiratory Syndrome Coronavirus. J Virol, 90(6):3253-3256.


51.    Wang, M.N., Zhang, W., Gao, Y.T., Hu, B., Ge, X.Y., Yang, X.L., Zhang, Y.Z. & Shi, Z.L*. (2016). Longitudinal surveillance of SARS-like coronaviruses in bats by quantitative real-time PCR. Virol Sin, 31(1):78-80.


52.    Ge, X.Y.#, Wang, N.#, Zhang, W., Hu, B., Li, B., Zhang, Y.Z., Zhou, J.H., Luo, C.M., Yang, X.L., Wu, L.J., Wang, B., Zhang, Y., Li, Z.X. & Shi, Z.L*. (2016). Coexistence of multiple coronaviruses in several bat colonies in an abandoned mineshaft. Virol Sin, 31(1):31-40.


53.    Shi, Z.L.*, Guo, D.*, Rottier, P.J.M*. (2016). Coronavirus: epidemiology, genome replication and the interactions with their hosts. Virol Sin, 31(1):1-2.