贺新义 - 教师 - 上海交通大学分子微生物学研究室

研究人员

贺新义
研究员
链霉菌异常修饰-限制系统
Email: xyhe@sjtu.edu.cn

贺新义：男，1975 年11 月出生，博士，上海交通大学微生物学研究员，国家自然科学基金委创新研究群体科学基金项目研究骨干。研究兴趣一直聚焦于核苷酸代谢，包括基础代谢中DNA磷硫酰化，羟甲基化，糖羟甲基化等异常修饰形成和识别的分子机理；以及次级代谢中具有良好生物活性的核苷类抗生素的生物合成，如杀稻瘟菌素，米多霉素和精霉素的生物合成的酶学研究。近五年来已发表第一或通讯作者SCI论文14篇，合作论文发表在《自然》杂志上并被评为2011年度中国科学十大进展；获得授权发明专利3项；先后主持4项国家自然科学基金项目；2004、05、09、10和14年度上海交通大学教师年终考核优秀；2010年获得上海交通大学SMC-晨星青年学者奖励计划 A类；相关研究成果获得“2005年中国高校十大科技进展”。并担任Journal of Biochemistry and Molecular Biology Research (ISSN2313-7177) 编委。

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.