Resume:

Yong-Yi Shen，Male，Born in March, 1981, Fujian province, Ph.D, Professor. 

He received his Ph.D Degree in 2010 at the Chinese Academy of Sciences. And get an associate professor’s position at State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, The Chinese Academy of Sciences. He had two years of visiting scholar’s experience in University of Hong Kong. He received professor position at South China Agricultural University in January 2016. 

Yong-Yi Shen’s research is currently focusing on computational biology and patho-ecology, such as the evolution of avian flu viruses, the population evolution of viruses. He has published 30 SCI papers including Nature, Science, Nature communications, PNAS et al., totally been cited for more than 700 times.

Education and Training Program:

　　January, 2013-January, 2015: visiting scholar, School of Public Health, The University of Hong Kong, Hong Kong, China.

September, 2005- June, 2010: Ph.D., Genetics, Kunming Institute of Zoology, The Chinese Academy of Sciences, Kunming, China

September, 2000- June, 2004: B.S., School of Life Sciences, University of Science and Technology of China, Hefei, China

Working Experience:

　　January, 2016-at present: Professor, College of Veterinary Medicine, South China Agricultural University, Guangzhou, China

August, 2013- December 2015: Professor, Joint Influenza Research Centre (SUMC/HKU), Shantou University Medical College, Shantou, China.

August, 2010- December 2012: Associate Professor, State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, The Chinese Academy of Sciences, Kunming, China.

Research Interests:

computational biology

evolution of avian flu viruses

population genetics

Grants: 

National Natural Science Foundation of China (No. 31822056), 1,300,000 RMB.

Guangdong Natural Science Funds for Distinguished Young Scholar (2014A030306046), 1,000,000 RMB.

Publications:

1.Xiang D, Shen X, Pu Z, Irwin DM, Liao M, Shen Y*. Convergent evolution of human-isolated H7N9 avian influenza A viruses. The Journal of infectious diseases. 2018;217:1699-707.

2.Xiang D, Pu Z, Luo T, Guo F, Li X, Shen X, Irwin DM, Murphy RW, Liao M, Shen Y*. Evolutionary dynamics of avian influenza A H7N9 virus across five waves in mainland China, 2013-2017. J Infect. 2018;77:205-11.

3.Xiang D, Irwin DM, Shen Y*. The H7N9 viruses have lost most of their previous lineages in the fifth wave. J Infect. 2018;76:417-8.

4.Tian L, Shen X, Murphy RW, Shen Y*. The adaptation of codon usage of +ssRNA viruses to their hosts. Infect Genet Evol. 2018;63:175-9.

5.Luo T, Liu L, Shen X, Irwin DM, Liao M, Shen Y*. The evolutionary dynamics of H1N1/pdm2009 in India. Infect Genet Evol. 2018.

6.Luo K, Zhang K, Liu L, Shen X, Jiao P, Song Y, Lv J, Wang M, Liu Y, Qi W, Ren T, Irwin DM, Liao M*, Shen Y*. The genetic and phylogenetic analysis of a highly pathogenic influenza A H5N6 virus from a heron, southern China, 2013. Infect Genet Evol. 2018;59:72-4.

7.Li X, Shen X, Chen X, Xiang D, Murphy RW, Shen Y*. Detection of potential problematic Cytb gene sequences of fishes in GenBank. Frontiers in Genetics. 2018;9(30).

8.Kang Y, Shen X, Yuan R, Xiang B, Fang Z, Murphy RW, Liao M, Shen Y*, Ren T*. Pathogenicity and transmissibility of three avian influenza A (H5N6) viruses isolated from wild birds. J Infect. 2018;76(3):286-94.

9.Guo F, Luo T, Pu Z, Xiang D, Shen X, Irwin DM, Liao M, Shen Y*. Increasing the potential ability of human infections in H5N6 avian influenza A viruses. J Infect. 2018: pii: S0163-4453(18)30242-1.

10.Kang Y, Liu L, Feng M, Yuan R, Huang C, Tan Y, Gao P, Xiang D, Zhao X, Li Y, Irwin DM, Shen Y*, Ren T*. Highly pathogenic H5N6 influenza A viruses recovered from wild birds in Guangdong, southern China, 2014-2015. Sci Rep. 2017;7:44410.

11.Shen Y#, Ke CW#, Li Q#, Yuan RY, Xiang D, Jia WX, Yu YD, Liu L, Huang C, Qi WB, Sikkema R, Wu J, Koopmans M, Liao M* (2016) Novel Reassortant Avian Influenza A(H5N6) Viruses in Humans, Guangdong, China, 2015. Emerg Infect Dis 2016 22:1507-1509

12.Lam TT#, Wang J#, Shen Y#, Zhou B, Duan L, Cheung CL, Ma C, Lycett SJ, Leung CY, Chen X, Li L, Hong W, Chai Y, Zhou L, Liang H, Ou Z, Liu Y,Farooqui A, Kelvin DJ, Poon LL, Smith DK, Pybus OG, Leung GM, Shu Y, Webster RG, Webby RJ, Peiris JS, Rambaut A, Zhu H, Guan Y*. The genesis and source of the H7N9 influenza viruses causing human infections in China. Nature. 2013 502:241-244.

13.Lam TT#, Zhou B#, Wang J#, Chai Y#, Shen Y#, Chen X#, Ma C, Hong W, Chen Y, Zhang Y, Duan L, Chen P, Jiang J, Zhang Y, Li L, Poon LL, Webby RJ, Smith DK, Leung GM, Peiris JS, Holmes EC, Guan Y*, Zhu H*. Dissemination, divergence and establishment of H7N9 influenza viruses in China. Nature. 2015 522:102-5

14.Sabir JS#, Lam TT#, Ahmed MM#, Li L#, Shen Y, Abo-Aba SE, Qureshi MI, Abu-Zeid M, Zhang Y, Khiyami MA, Alharbi NS, Hajrah NH, Sabir MJ, Mutwakil MH, Kabli SA, Alsulaimany FA, Obaid AY, Zhou B, Smith DK, Holmes EC, Zhu H, Guan Y*. Co-circulation of three camel coronavirus species and recombination of MERS-CoVs in Saudi Arabia. Science. 2016 351(6268):81-4.

15.Ge RL#, Cai Q#, Shen Y#, San A, Ma L, Zhang Y, Yi X, Chen Y, Yang L, Huang Y, He R, Hui Y, Hao M, Li Y, Wang B, Ou X, Xu J, Zhang Y, Wu K, Geng C, Zhou W, Zhou T, Irwin DM, Yang Y, Ying L, Bao H, Kim J, Larkin DM, Ma J, Lewin HA, Xing J, Platt RN 2nd, Ray DA, Auvil L, Capitanu B, Zhang X, Zhang G, Murphy RW, Wang J, Zhang YP, Wang J (2013). Draft genome sequence of the Tibetan antelope. Nature Communications 2013 4:1858.

16.Shen Y, Liang L, Li GS, Murphy RW, Zhang YP. Parallel Evolution of Auditory Genes for Echolocation in Bats and Toothed Whales. PLoS Genet. 2012 8:e1002788.

17.Shen Y, Liang L, Zhu ZH, Zhou WP, Irwin DM, Zhang YP. Adaptive evolution of energy metabolism genes and the origin of flight in bats. Proc. Natl. Acad. Sci. U.S.A. 2010 107: 8666-8671.

18.Shen Y, Shi P, Sun YB, Zhang YP. Relaxation of selective constraints on avian mitochondrial DNA following the degeneration of flight ability. Genome Res. 2009 19: 1760-1765.

19.Sun YB#, Shen Y#, Irwin DM, Zhang YP. Evaluating the roles of energetic functional constraints on teleost mitochondrial-encoded protein evolution. Mol. Biol. Evol. 2011 28: 39-44.

20.Liu HQ, Wei JK, Li B, Wang MS, Wu RQ, Rizak JD, Zhong L, Wang L, Xu FQ, Shen Y*, Hu XT*, Zhang YP*. Divergence of dim-light vision among bats (order: Chiroptera) as estimated by molecular andelectrophysiological methods. Sci Rep. 2015 5:11531.

21.Ai WM, Chen SB, Chen X, Shen XJ, Shen Y*. Parallel evolution of IDH2 gene in cetaceans, primates and bats. FEBS Lett. 2014 588(3):450-4. PMID: 24374336.

22.Zhou T, Shen X, Irwin DM, Shen Y*, Zhang YP*. Mitogenomic analyses propose positive selection in mitochondrial genes for high-altitude adaptation in galliform birds. Mitochondrion. 2014 18:70-5.

23.Shen Y, Liang L, Sun YB, Yue BS, Yang XJ, Murphy RW, Zhang YP*.  A mitogenomic perspective on the ancient, rapid radiation in the Galliformes with an emphasis on the Phasianidae. BMC Evol. Biol. 2010 10:132.

24.Shen Y*, Dai K, Cao X, Murphy RW, Shen XJ, Zhang YP*. The Updated Phylogenies of the Phasianidae Based on Combined Data of Nuclear and Mitochondrial DNA. PLoS One. 2014 9(4):e95786.

25.Shen Y, Liu J, Irwin DM, Zhang YP. Parallel and convergent evolution of the dim-light vision gene RH1 in bats (Order: Chiroptera). PLoS ONE 2010 5: e8838.

26.Shen Y, Lim BK, Liu HQ, Liu J, Irwin DM, Zhang YP. Multiple episodes of convergence in genes of the dim light vision pathway in bats. PLoS ONE 2012 7:e34564.

27.Liang L, Shen Y*, Pan XW, Zhou TC, Yang C, Irwin DM, Zhang YP*. Adaptive evolution of the Hox gene family for development in bats and dolphins. PLoS One. 2013 8(6):e65944.

28.Sun YB, Zhou WP, Liu HQ, Irwin DM, Shen Y*, Zhang YP*. Genome-Wide Scans for Candidate Genes Involved to the Aquatic Adaptation of Dolphins. Genome Biol. Evol. 2013 5:130-139.

29.Shen Y*, Chen X, Murphy RW (2013). Assessing DNA Barcoding as a Tool for Species Identification and Data Quality Control. PLoS One 8:e57125.

30.Shen Y*, Zhou WP, Zhou TC, Zeng YN, Li GM, Irwin DM, Zhang YP*. Genome-wide scan for bats and dolphin to detect their genetic basis for new locomotive styles. PLoS ONE 2012 7:e46455.