课题组主要着眼于重要人类病毒的遗传进化和致病机理研究，新型病毒工具和抗病毒策略的研发。将运用反向遗传学、病毒学、免疫学，影像学、生物信息学和各种组学研究手段，寻找病毒上和宿主中影响病毒感染和传播的重要突变和关键因子，阐述其发挥作用的分子机制；并以这些病毒突变和宿主因子为靶点，研发新型抗病毒策略和治疗手段。同时，课题组开发各种新型病毒载体工具，应用于病毒学领域的基础研究，药物、抗体和疫苗的筛选及评估，药物的递送和疾病的治疗，为各种新发突发病毒传染病的防控提供科技支撑。

1. Liu Y, Liu J, Plante KS, Plante JA, Xie X, Zhang X, Ku Z, An Z, Scharton D, Schindewolf C, Menachery VD, Shi PY* and Weaver SC*. The N501Y spike substitution enhances SARS-CoV-2 infection and transmission. Nature. 2022, 602: 294–299.

2. Liu Y, Zhang X, Liu J, Xia H, Zou J, Muruato AE, Periasamy S, Kurhade C, Plante JA, Bopp NE, Kalveram B, Bukreyev A, Ren P, Wang T, Menachery VD, Plante KS, Xie X*, Weaver SC* and Shi PY*. A live-attenuated SARS-CoV-2 vaccine candidate with accessory protein deletions. Nature communications. 2022, 13: 4337 

3. Liu Y, Liu J, Zou J, Kalveram B, Machado RR, Ren P, Türeli S, Smith DJ, Weaver, SC, Xie, X* and Shi PY*. Cross-neutralization and cross-protection among SARS-CoV-2 viruses bearing different variant spikes. Signal Transduction and Targeted Therapy. 2022, 7: 285.

4. Liu Y, Liu J, Xia H, Zhang X, Fontes-Garfias CR, Swanson KA, Cai H, Sarkar R, Chen W, Cutler M, Cooper D, Weaver SC, Muik A, Sahin U, Jansen KU, Xie X*, Dormitzer PR* and Shi PY*. Neutralizing activity of BNT162b2-elicited serum. New England Journal of Medicine. 2021, 384: 1466-1468. 

5. Plante JA, Liu Y, Liu J, Xia H, Johnson BA, Lokugamage KG, Zhang X, Muruato AE, Zou J, Fontes-Garfias CR, Mirchandani D, Scharton D, Bilello JP, Ku Z, An Z, Kalveram B, Freiberg AN, Menachery VD, Xie X*, Plante KS*, Weaver SC* and Shi PY*. Spike mutation D614G alters SARS-CoV-2 fitness. Nature. 2021, 592: 116-121.

6. Liu Y, Liu J, Xia H, Zhang X, Zou J, Fontes-Garfias CR, Weaver SC, Swanson KA, Cai H, Sarkar R, Chen W, Cutler M, Cooper D, Muik A, Sahin U, Jansen KU, Xie X*, Dormitzer PR* and Shi PY*. BNT162b2-elicited neutralization against new SARS-CoV-2 spike variants. New England Journal of Medicine. 2021, P385: 472-474.

7. Zhang X, Liu Y, Liu J, Bailey AL, Plante KS, Plante JA, Zou J, Xia H, Bopp NE, Aguilar PV, Ren P, Menachery VD, Diamond MS, Weaver SC, Xie X* and Shi PY*. A trans-complementation system for SARS-CoV-2 recapitulates authentic viral replication without virulence. Cell. 2021, 184: 2229-2238.e13.

8. Xie X, Liu Y, Liu J, Zhang X, Zou J, Fontes-Garfias CR, Xia H, Swanson KA, Cutler M, Cooper D, Menachery VD, Weaver SC, Dormitzer PR* and Shi PY*. Neutralization of SARS-CoV-2 spike 69/70 deletion, E484K and N501Y variants by BNT162b2 vaccine-elicited sera. Nature Medicine. 2021, 27: 620-621. 

9. Liu Y, Liu J, Du S, Shan C, Nie K, Zhang R, Li XF, Zhang R, Wang T, Qin CF, Wang P, Shi PY* and Cheng G*. Evolutionary Enhancement of Zika Virus Infectivity in Aedes Aegypti Mosquitoes. Nature. 2017, 545: 482.

10. Liu J, Liu Y, Nie K, Du S, Qiu J, Pang X, Wang P and Cheng G*. Flavivirus NS1 Protein in Infected Host Sera Enhances Viral Acquisition by Mosquitoes. Nature Microbiology. 2016, 1: 16087.