贺新义
研究员
链霉菌异常修饰-限制系统
Email: xyhe@sjtu.edu.cn
教育经历:
2012/08-2013/08,访问学者,美国新英格兰生物实验室
2004/03-2008/06,上海交通大学,生命科学技术学院,博士
1998/09-2001/06,华中农业大学,生命科学技术学院,硕士
1994/09-1998/06,华中农业大学,生命科学技术学院,学士
工作经历:
2015/01- 上海交通大学微生物代谢国家重点实验室,研究员
2014/01-2014/12 上海交通大学微生物代谢国家重点实验室,副研究员
2010/01-2013/12 上海交通大学微生物代谢国家重点实验室,副教授
2003/09-2009/12 上海交通大学,生命科学技术学院生物工程系,讲师
2001/09-2003/08 上海交通大学,生命科学技术学院生物工程系,助教
研究方向:
1)细菌核苷酸修饰及识别的酶学研究;
2)核苷类抗生素的生物合成。
Figure 1. Structures of MilB by itself and its catalytically inactive E103A. (Zhao, et al. Nucleic Acids Research, 2014)
Figure 2 The proposed biosynthesis pathway of MIL. (Wu, et al. Chembiochem, 2012)
Figure 3 Cleavage of Phosphorothioated DNA and Methylated DNA by the Type IV Restriction Endonuclease ScoMcrA (Liu, et al. PLoS Genet. 2010 )
代表论文:( * 为通讯作者)
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.
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