DNA Phosphorothioation and Nucleoside Antibiotics
1. Education Experience
2012.08-2013.08, visiting scientist, New England Biolabs, USA
2004.03-2008.06, Ph.D., State Key Laboratory of Microbial Metabolism, Shanghai Jiao Tong University
1998.09-2001.06, M. S., Huazhong Argriculture University
1994.09-1998.06, B. E., Huazhong Agriculture University
2. Working Experience
2015.01- Professor, Department of Biological Engineering, School of Life Science & Biotechnology, SJTU
2010.01-2014.12 Associate Professor, Department of Biological Engineering, School of Life Science & Biotechnology, SJTU
2008.07-2008.10 Visiting Scientist, Department of Infection, Immunity and Inflammation , School of Medicine,
University of Leicester UK
2007.07-2007.10 Visiting Scientist, Department of Infection, Immunity and Inflammation, School of Medicine,
University of Leicester UK
2003.08-2009.12 Lecturer, Department of Biological Engineering, School of Life Science & Biotechnology, SJTU
2001.07-2003.07 Research Assistant, Department of Biological Engineering, School of Life Science & Biotechnology,
3. Research interests:
1. Enzymatic studies of nucleoside Modification and Recognition;
2. Biosynthesis and engineering of active peptidyl nucleosides;
Figure 3 Cleavage of Phosphorothioated DNA and Methylated DNA by the Type IV Restriction Endonuclease ScoMcrA (Liu, et al. PLoS Genet. 2010 )
4. Selected Publications (*Corresponding author)
1: Han T, Yamada-Mabuchi M, Zhao G, Li L, Liu G, Ou HY, Deng Z, Zheng Y*, He X*. Recognition and cleavage of 5-methylcytosine DNA by bacterial SRA-HNH proteins. Nucleic Acids Res. 2015 Jan; 43(2):1147-59.
2: Zhao G, Wu G, Zhang Y, Liu G, Han T, Deng Z, He X*. Structure of theN-glycosidase MilB in complex with hydroxymethyl CMP reveals its Arg23specifically recognizes the substrate and controls its entry. Nucleic Acids Res. 2014 Jul; 42(12):8115-24.
3: Liu G, Ou HY, Wang T, Li L, Tan H, Zhou X, Rajakumar K, Deng Z*, He X*. Cleavage of phosphorothioated DNA and methylated DNA by the type IV restriction endonuclease ScoMcrA. PLoS Genet. 2010 Dec 23; 6(12):e1001253.
4: Liu G, Zhang Z, Zhao G, Deng Z, Wu G*, He X*. Crystallization and preliminary X-ray analysis of the type IV restriction endonuclease ScoMcrA from Streptomyces coelicolor, which cleaves both Dcm-methylated DNA and phosphorothioated DNA. Acta Crystallogr F Struct Biol Commun. 2015 Jan 1; 71(Pt 1):57-60.
5: Feng J, Wu J, Gao J, Xia Z, Deng Z, He X*. Biosynthesis of the β-methylarginine residue of peptidyl nucleoside arginomycin in Streptomyces arginensis NRRL 15941. Appl Environ Microbiol. 2014 Aug; 80(16):5021-7. doi: 10.1128/AEM.01172-14.
6: Feng J, Wu J, Dai N, Lin S, Xu HH, Deng Z, He X*. Discovery and characterization of BlsE, a radical S-adenosyl-L-methionine decarboxylase involved in the blasticidin S biosynthetic pathway. PLoS One. 2013 Jul18;8(7):e68545.
7: Li L, Wu J, Deng Z, Zabriskie TM, He X*. Streptomyces lividans blasticidin S deaminase and its application in engineering a blasticidin S-producing strain for ease of genetic manipulation. Appl Environ Microbiol. 2013 Apr; 79(7):2349-57.
8: Wu J, Li L, Deng Z, Zabriskie TM, He X*. Analysis of the mildiomycin biosynthesis gene cluster in Streptoverticillum remofaciens ZJU5119 and characterization of MilC, a hydroxymethyl cytosyl-glucuronic acid synthase. Chembiochem. 2012 Jul 23; 13(11):1613-21.
9: Yu Q, Du A, Liu T, Deng Z*, He X*. The biosynthesis of the polyether antibiotic nanchangmycin is controlled by two pathway-specific transcriptional activators. Arch Microbiol. 2012 Jun; 194(6):415-26.
10: Ou HY, Kuang SN, He X, Molgora BM, Ewing PJ, Deng Z, Osby M, Chen W, Xu HH*. Complete genome sequence of hypervirulent and outbreak-associated Acinetobacter baumannii strain LAC-4: epidemiology, resistance genetic determinants and potential virulence factors. Sci Rep. 2015 Mar 2; 5:8643.
11: Bi D, Xu Z, Harrison EM, Tai C, Wei Y, He X, Jia S, Deng Z, Rajakumar K, Ou HY*. ICEberg: a web-based resource for integrative and conjugative elements found in Bacteria. Nucleic Acids Res. 2012 Jan; 40(Database issue):D621-6.
12: Li J, Qu X, He X, Duan L, Wu G, Bi D, Deng Z, Liu W, Ou HY*. ThioFinder: a web-based tool for the identification of thiopeptide gene clusters in DNAsequences. PLoS One. 2012; 7(9):e45878.
13: Xu F, Kong D, He X, Zhang Z, Han M, Xie X, Wang P, Cheng H, Tao M, Zhang L, Deng Z, Lin S*. Characterization of streptonigrin biosynthesis reveals a crypticcarboxyl methylation and an unusual oxidative cleavage of a N-C bond. J Am Chem Soc. 2013 Feb 6; 135(5):1739-48.
14: Gu TP, Guo F, Yang H, Wu HP, Xu GF, Liu W, Xie ZG, Shi L, He X, Jin SG, IqbalK, Shi YG, Deng Z, Szabó PE, Pfeifer GP, Li J*, Xu GL*. The role of Tet3 DNA dioxygenase in epigenetic reprogramming by oocytes.Nature. 2011 Sep4; 477(7366):606-10.
5. Selected Foundations:
(1)Principal Investigator (项目负责人): Genetics and transfer mechanism of a novel genomic island present in Strepromyces lividans 66, Grant supported by the National Science Foundation of China (NSFC) (2006.01-2008.12). RMB300,000
(2) Principal Investigator: Identification and molecular design of targets for biological drugs used in argriculture, 863 project Supported by the Ministry of Science and Technology: (2006.01-2009.12). RMB 500,000
(3) Principal Investigator: Engineering of industrial erythromycin-producing strain and optimization technology of fermentation process, 863 project Supported by the Ministry of Science and Technology: (2006.01-2009.12). RMB 400,000
(4) Principal Investigator: Identification and functional characterization of a DNA sulfur modification dependent restriction system in Strepromyces coelicolor, Grant supported by the National Science Foundation of China (NSFC) (2010.01-2012.12). RMB350,000
(5)Principal Investigator: Identification and functional characterization of DNA methylation dependent restriction system in Strepromyces coelicolor, Grant supported by the National Science Foundation of China (NSFC) (2012.01-2015.12). RMB600,000
SMC-Morning Star Young Scolar leval A (SMC-晨星青年学者奖励计划 A类) in 2010;
Ten Scientific Breakthroughs in Chinese Universities, 2005;
Editor, Journal of Biochemistry and Molecular Biology Research.
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