Xia Jin Viral Disease and Vaccine Translational Research Unit, CAS Key Laboratory of Molecular Virology and Immunology, Institute Pasteur of Shanghai, Chinese Academy of Sciences, Shanghai
1 protocol

Rong Xu 1 protocol

Yingying Ma 1 protocol

Yi Zhou 1 protocol

Chiyu Zhang
  • Professor, Pathogen Discovery and Big Data Center, Institut Pasteur of Shanghai, CAS, 2012-
Research focus
  • virology
  • 1 Author merit

Education

Ph.D., Kunming Institute of Zoology, Chinese Academy of Sciences, China, 2003

Publications

Since 2011
• Fu X, Wan Z, Li Y, Hu Y, Jin X, Zhang C*. National epidemiology and evolutionary history of four major enteroviruses associated with hand, foot and mouth disease in China from 2008 to 2016. Virologica Sinica. 2019. in press
• Hu Y, Wan Z, Mu Y, Zhou Y, Liu J, Lan K*, Zhang C*. A Sensitive Reverse-Transcription Loop-Mediated Isothermal Amplification Combined with SYTO 9 for Rapid Detection of Respiratory Syncytial Virus. J Infect Dev Count, 2019, in press
• Fu X, Mao L, Wan Z, Xu R, Ma Y, Shen L, Jin X, Zhang C*. High proportion of coxsackievirus B3 genotype A in hand, foot and mouth disease in Zhenjiang, China, 2011-2016. Int J Infect Dis 2019, 87:1-7.
• Zhou Y#, Wan Z#, Yang S#, Li Y, Li M, Wang B, Hu Y, Xia X, Jin X, Yu N*, Zhang C*. A mismatch-tolerant reverse transcription loop-mediated isothermal amplification method and its application on simultaneous detection of all four serotype of dengue viruses. Front Microbiol 2019, 10:1056.
• Li Y$, Fu X$, Ma J$, Zhang J$, Hu Y, Dong W, Wan Z, Li Q, Kuang Y-Q, Lan K, Jin X, Wang JH*, Zhang C* Altered respiratory virome and serum cytokine profile associated with recurrent respiratory tract infections in children. Nat Commun. 2019, 10(1), 2288. doi: 10.1038/s41467-019-10294-x.
• Wang J#, Li Y#, He X#, Ma J, Hong W, Hu F, Zhao L, Li Q, Zhang J, Zhang C*, Zhang F*. Gemykibivirus genome in lower respiratory tract of elderly woman with unexplained acute respiratory distress syndrome. Clin Infect Dis 2019, 69(5):861-864. doi: 10.1093/cid/ciz072.
• Li Y, Zhang P, Wu X, Wen D, Ji L, Chen L, Liu G, Fu X, Zhang J, Zhang C*, Han J*. High prevalence of norovirus GII.P16/GII.2 and chicken anemia virus in two acute gastroenteritis outbreaks in Huzhou, China. Acta Virologica. 2019, 63: 328-332.
• Ye M, Chen X, Wang Y, Duo L, Zhang C*, Zheng YT*. Identification of a new HCV subtype 6xg among injection drug users in Kachin, Myanmar. Front Microbiol 2019, 10:814. doi: 10.3389/fmicb.2019.00814.
• Li Y#, Wan Z#, Hu Y#, Zhou Y, Chen Q, Zhang C*. A mismatch-tolerant RT-quantitative PCR: application to broad-spectrum detection of respiratory syncytial virus. BioTechniques 2019, 66:225-230.
• Hao W, Xu X, Shi H, Zhang C, Chen X. No association of TP53 codon 72 and intron 3 16-bp duplication polymorphisms with breast cancer risk in Chinese Han women: new evidence from a population-based case-control investigation. Eur J Med Res. 2018 Oct 11;23(1):47.
• Chen X, Zhou YH, Ye M, Wang Y, Duo L, Pang W, Zhang C*, Zheng YT*. Burmese injecting drug users in Yunnan play a pivotal role in the cross-border transmission of HIV-1 in the China-Myanmar border region. Virulence 2018 2018;9(1):1195-1204.
• Chen X, Duo L, Ye M, Zhang C*, Zheng YT*. Non-Chinese Immigrants: Challenge Faced By Yunnan of China to Achieve the 90-90-90 Goals. Virologica Sinica. 2018. Jun;33(3):291-293.
• Mao L#, Fu X#, Wu J, Shen L, Gu J, Yuan Z, Chen J, Zou X, Zhang C*. The dynamics of the Hand Foot and Mouth Disease epidemic from 2008 to 2016 in Zhenjiang city, China. Future Microbiol. 2018, 13:1029-1040.
• Li Y, Deng X, Hu F, Wang J, Liu Y, Huang H, Ma J, Zhang J, Zhang F*, Zhang C*. Metagenomic analysis identified co-infection with human rhinovirus C and bocavirus 1 in an adult suffering from severe pneumonia. J infection. 2018 Mar;76(3):311-313.
• Li Y, Wan Z, Zhou Y, Jin X, Shi H*, Zhang C*. A Simple Visual Detection Method of Human Zika Virus Using Reverse Transcription Loop Mediated Isothermal Amplification. J Bacteriol Parasitol 2017, 8:6.
• Zhang M, Liu K, Hu Y, Lin Y, Li Y, Zhong P, Jin X, Zhu X, Zhang C*. A novel quantitative PCR mediated by high-fidelity DNA polymerase. Sci Rep. 2017; 7(1):10365.
• Kuang WD, Zhou YH, Zhong P, Zhang C, Wang JH. Amino acids at positions 3, 168, and 169 are associated with the ability of Nef proteins from HIV-1 CRF01_AE to downmodulate CD4. J Med Virol. 2017 Oct;89(10):1788-1795.
• Hu Y, Wan Z, Zhou YH, Smith D, Zheng YT, Zhang C*. Identification of two new HIV-1 circulating recombinant forms (CRF87_cpx and CRF88_BC) from reported unique recombinant forms in Asia. AIDS Res Hum Retroviruses. 2017 Apr;33(4):353-358.
• Chen X, Ye M, Duo L, Pang W, Smith D, Zhang C*, Zheng YT*. First description of two new HIV-1 recombinant forms CRF82_cpx and CRF83_cpx among drug users in Northern Myanmar. Virulence. 2017, 8: 497-503.
• Chen X, Ye M, Pang W, Smith DM, Zhang C*, Zheng YT*. First appearance of HIV-1 CRF07_BC and CRF08_BC outside China. AIDS Res Hum Retroviruses. 2017 Jan;33(1):74-76.
• Wan Z#, Zhang Y #, He Z, Liu J, Lan K, Hu Y*, Zhang C*. A melting curve-based multiplex RT-qPCR assay for simultaneous detection of four human coronaviruses. Int J Mol Sci. 2016, 17(11). pii: E1880.
• Qu D, Li C, Sang F, Li Q, Jiang ZQ, Xu LR, Guo HJ, Zhang C, Wang JH. The variances of Sp1 and NF-κB elements correlate with the greater capacity of Chinese HIV-1 B'-LTR for driving gene expression. Sci Rep. 2016 Oct 4; 6:34532. doi: 10.1038/srep34532.
• Wan Z#, Chen Q #, Chen X, Duo L, Li P, Zheng YT*, Zhang C*. HCV diversity among Chinese and Burmese IDUs in Dehong, Yunnan, China. PLoS ONE 2016,11(9): e0163062.
• Liu T, Wan Z, Liu J, Zhang L, Zhou Y, Lan K, Hu Y*, Zhang C*. A Novel Real-time Reverse Transcription-Polymerase Chain Reaction Assay with Partially Double-Stranded Linear DNA Probe for Sensitive Detection of Hepatitis C Viral RNA. J Virol Methods. 2016; 236:132-138.
• Zhao J, Chen L, Chaillon A, Zheng C, Cai W, Yang Z, Li G, Gan Y, Wang X, Hu Y, Zhong P, Zhang C*, Smith DM*. The dynamics of the HIV epidemic among men who have sex with men (MSM) from 2005 to 2012 in Shenzhen, China. Sci Rep. 2016, 6:28703. doi: 10.1038/srep28703.
• Dong W, Chen Q, Hu Y, He D, Liu J, Yan H, Lan K *, Zhang C*. The epidemiological and clinical characteristics of respiratory viral infection among children in Shanghai, China. Arch Virol. 2016, 161(7):1907-13. doi: 10.1007/s00705-016-2866-z.
• Qi Y, Chen Q, Hao F, Wan Z, Guo H, Lu R, Mao L, Du H, Lu J*, Zhang C*. Subtype distribution of hepatitis C virus in Jiangsu, China. J Med Virol. 2016; 88:498–505.
• Fu Y, Li S, Zhang Z, Man S, Li X, Zhang W, Zhang C*, Cheng X*. Phylogeographic analysis of severe fever with thrombocytopenia syndrome virus from Zhoushan Islands, China: implication for transmission across the ocean. Sci Rep. 2016; 6:19563.
• Fu X, Cheng Y, He Z, Dong W, Lan K, Zhang C, Hu Y*. Complete genome sequence of human respiratory syncytial virus from Shanghai, China. Genome Announc. 2015; 3(5): e00989-15.
• Zhou YH, Chen X, Liang YB, Pang W, Qin WH, Zhang C, Zheng YT*. Near Full-Length Identification of a Novel HIV-1CRF01_AE/B/C Recombinant in Northern Myanmar. AIDS Res Hum Retroviruses. 2015 Aug; 31(8):845-50.
• Zhang Y, Li SK, Yi Yang K, Liu M, Lee N, Tang X, Wang H, Liu L, Chen Z, Zhang C, Wang J*, Kwok-Wing Tsui S*. Whole genome methylation array reveals the down-regulation of IGFBP6 and SATB2 by HIV-1. Sci Rep. 2015. 5:10806. PMID:26039376.
• Hao W, Fan L, Chen Q, Chen X, Zhang S, Lan K, Lu J, Zhang C*. Modified proofreading PCR for detection of point mutation, insertion and deletion using a ddNTP-blocked primer. PLoS ONE 2015, 10(4): e0123468.
• Wang L, Clavaud C*, Bar-Hen A, Cui M, Gao J, Liu Y, Liu C, Shibagaki N, Gueniche A, Jourdain R, Lan K, Zhang C*, Alteyer R, Breton L. Characterization of the major bacterial-fungal populations colonizing dandruff scalps in Shanghai, China, shows microbial disequilibrium. Exp Dermatol. 2015, 24(5):398-400.
• Zhang C, Zhu R, Yang Y, Chi Y, Yin J, Tang X, Yu L, Zhang C*, Huang Z*, Zhou D*. Phylogenetic analysis of the major causative agents of hand, foot and mouth disease in Suzhou city, Jiangsu province, China, in 2012–2013. Emerg Microbes Infect 2015, 4: e12.
• Yao N, Zhang CX, Liu Q, Liu J, Zhang C. Polymorphism characteristics of HIV-1 gpl20 and 5 hypervariable regions. Turk J Med Sci. 2015;45(1):47-54.
• Zhou YH, Liang YB, Pang W, Qin WH, Tao ZH, Chen X, Zhang C*, Zheng TY*. Diverse forms of HIV-1 among Burmese long-distance truck drivers imply their contribution to HIV-1 cross-border transmission. BMC Infect Dis 2014, 14:463.
• Liu J, Mu Y, Dong W, Yao F, Wang L, Yan H, Lan K*, Zhang C*. Genetic Variation of human respiratory syncytial virus among children with fever and respiratory symptoms in Shanghai, China, from 2009 to 2012. Infect Genet Evol 2014, 27: 131–136.
• Han J, Liu J, Wang L, Zhang P, Liu G, Lan K, Zhang C*. Persistent detection of the H7N9 among poultry in Huzhou city, China, in summer, 2013. Int J Infect Dis 2014, 26: 72-75.
• Mu Y, Zeng J, Chen Q, Liu J, Wang L, Yao F, Cui M, He Z, Zhang C, Xiao M, Ke Lan*. New method for the visual detection of human respiratory syncytial virus using reverse transcription loop-mediated amplification. J Virol Methods. 2014; 206:84-88.
• Zhao J, Cai W, Zheng C, Yang Z, Xin R, Li G, Wang X, Chen L, Zhong P, Zhang C*. Origin and outbreak of HIV-1 CRF55_01B among MSM in Shenzhen, China. JAIDS 2014; 66: e65–e67.
• Han J, Wang L, Liu J, Jin M, Hao F, Zhang P, Zhang Z, Wen D, Wu X, Liu G, Ji L, Xu D, Zhou D, Leng Q, Lan K*, Zhang C*. Co-circulation of three HA and two NA subtypes of avian influenza viruses in Huzhou, China, April 2013: implication for the origin of the novel H7N9 virus. J Virol 2014; 88:6506-6511.
• Han J, Jin M, Zhang P, Liu J, Wang L, Wen D, Wu X, Liu G, Zou Y, Lv X, Dong X, Shao B, Gu S, Zhou D, Leng Q, Zhang C*, Lan K. Epidemiological link between exposure to poultry and all influenza A(H7N9) confirmed cases in Huzhou city, China, March to May 2013. Euro Surveill. 2013;18(20):pii=20481.
• Han J, Niu F, Jin M, Wang L, Liu J, Zhang P, Xie B, Wu X, Wen D, Ji L, Liu G, Yang Z, Zhang C, Zhou D, Leng Q, Lan K. Clinical presentation and sequence analyses of HA and NA antigens of the novel H7N9 viruses. Emerg Microbes Infect 2013, 2:e23.
• Hui KM, Hao FY, Li W, Zhang Z, Zhang C, Wang W, Ren Q. Cloning and identification of four Mu-type glutathione S-transferases from the giant freshwater prawn Macrobrachium rosenbergii. Fish Shellfish Immunol. 2013 Aug;35(2):546-52.
• Ren Q, Zhong X, Yin SW, Hao FY, Hui KM, Zhang Z, Zhang C, Yu XQ, Wang W. The first Toll receptor from the triangle-shell pearl mussel Hyriopsis cumingii. Fish Shellfish Immunol. 2013 May;34(5):1287-93.
• Pang W#, Zhang C# (co-first author), Duo L, Zhou YH, Yao ZH, Liu FL, Li H, Tu YQ, Zheng TY. Extensive and complex HIV-1 recombination between B’, C and CRF01_AE among IDUs in south-east Asia. AIDS 2012, 26(9):1121-9.
• Shen CJ, Jia YH, Tian RR, Ding M, Zhang C, Wang JH. Translation of Pur-α is targeted by cellular miRNAs to modulate the differentiation-dependent susceptibility of monocytes to HIV-1 infection. FASEB J. 2012; 26(11):4755-64.
• Liu J, Jia Y, Xu Q, Zheng YT, Zhang C*. Phylodynamics of HIV-1 unique recombinant forms in China-Myanmar border: implication for HIV-1 transmission to Myanmar from Dehong, China. Infect Genet Evol, 2012; 12:1944–1948.
• Zhang Z, Liu J, Li M, Yang H, Zhang C*. Evolutionary dynamics of the interferon-induced transmembrane gene family in vertebrates. PLoS ONE 2012; 7(11): e49265
• Zhang C*, de Silva S, Wang JH, Wu L*. Co-evolution of primate SAMHD1 and lentivirus Vpx leads to the loss of the vpx gene in HIV-1 ancestor. PLoS ONE 2012;7(5):e37477.
• Du H, Qi Y, Hao F, Huang Y, Mao L, Ji S, Huang M, Qin C, Yan R, Zhu X, Zhang C*. Complex patterns of HCV epidemic in Suzhou: Evidence for dual infection and HCV recombination in East China. J Clin Virol. 2012 Jul;54(3):207-12.
• Li SK, Leung R, Guo HX, Wei JF, Wang JH,Kwong KT, Lee SS, Zhang C, Tsui SKW. Detection and identification of plasma bacterial and viral elements in HIV/AIDS patients in comparison to healthy adults. Clin Microbiol Infect 2012; 18: 1126-1133.
• Meng Z, Xin R, Zhong P, Zhang C, Abubakar YF, Li J, Liu W, Zhang X, Xu J. A New Migration Map of HIV-1 CRF07_BC in China: Analysis of Sequences from 12 Provinces over a Decade. PLoS ONE 2012, 7(12): e52373.
• Ren Q, Qi YL, Hui KM, Zhang Z, Zhang C, Wang W. Four invertebrate-type lysozyme genes from triangle-shell pearl mussel (Hyriopsis cumingii). Fish Shellfish Immunol. 2012 Oct;33(4):909-15.
• Ren Q, Zhang Z, Li XC, Jie-Du, Hui KM, Zhang C, Wang W. Three different anti-lipopolysaccharide factors identified from giant freshwater prawn, Macrobrachium rosenbergii. Fish Shellfish Immunol. 2012 Oct;33(4):766-74.
• Ren Q, Li M, Du J, Zhang C, Wang W. Immune response of four dual-CRD C-type lectins to microbial challenges in giant freshwater prawn Macrobrachium rosenbergii. Fish Shellfish Immunol. 2012 Aug;33(2):155-67.
• Ren Q, Du ZQ, Li M, Zhang C, Chen KP. Cloning and expression analysis of an anti-lipopolysaccharide factor from giant freshwater prawn, Macrobrachium rosenbergii. Mol Biol Rep. 2012 Jul;39(7):7673-80.
• Liu J, Zhang C*. Phylogeographic Analyses Reveal a Crucial Role of Xinjiang in HIV-1 CRF07_BC and HCV 3a Transmissions in Asia. PLoS ONE 2011,6(8): e23347.
• Li M, Liu J, Zhang C*. Evolutionary history of the vertebrate mitogen activated protein kinases family. PLoS ONE 2011, 6(10): e26999.
• Zhang C*,Wu N, Liu J, Ge Q, Huang Y, Ren Q, Feng Q, He G. HCV Subtype Characterization among Injection Drug Users: Implication for a Crucial Role of Zhenjiang in HCV Transmission in China. PLoS ONE 2011, 6(2): e16817.
• Lu J, Zheng J, Xu Q, Chen K, Zhang C*, Adaptive Evolution of the Vertebrate Skeletal Muscle Sodium Channel. Genet Mol Biol 2011, 34:323-328.
• Ren Q, Li M, Zhang C, Chen KP. Six defensins from the triangle-shell pearl mussel Hyriopsis cumingii. Fish Shellfish Immunol. 2011 Dec;31(6):1232-8.
• Wu N, Ge Q, Feng Q, Zhang J, Liu X, Sun C, Xu Y, He G, Zhang C*. Hepatitis C Virus Infection among Injection Drug Users in Zhenjiang, Jiangsu, China. India J Virol 2011, 22(2):77–83.
1 Protocol published
A Mismatch-tolerant RT-LAMP Method for Molecular Diagnosis of Highly Variable Viruses
Authors:  Yingxue Li, Yi Zhou, Yingying Ma, Rong Xu, Xia Jin and Chiyu Zhang, date: 11/05/2019, view: 134, Q&A: 0
Loop-mediated isothermal amplification (LAMP) has been widely used in the detection of pathogens. However, there are usually numerous variants in one viral pathogen and primers employed in LAMP can hardly match all these variants. The mismatches ...
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