陈玲玲 【教授】
姓名 陈玲玲 性别
职称 教授 学位 博士
电话 18971629380 邮箱 llchen@mail.hzau.edu.cn
工作单位 华中农业大学信息学院
研究方向 植物及微生物基因组、转录组分析;代谢及蛋白互作网络构建及分析
教育经历

2001.09-2004.06,  天津大学,      理学院,  博士研究生
     1996.09-1999.06,  青岛化工学院,  化工系,  硕士研究生
     1991.09-1995.06, 青岛化工学院,  化工系,  本科

主要职历

2014.07-至今,      华中农业大学信息学院,             教授 、博士生导师
     2009.02-2014.06,   华中农业大学生命科学技术学院,     教授 、博士生导师
     1999.07-2009.02,   山东理工大学生命科学学院,        历任讲师、副教授
     1995.07-1996.08,   山东滨州印染集团公司,             质检员  

科研成果

    近些年主要从事植物及其病原菌基因组组装注释、转录组分析及生物网络建模等方向的研究工作。先后主持国家863子课题两项,国家自然科学基金项目三项,在Nature Genetics,Plant J.,Nucleic Acids Res.等国际权威及知名期刊发表SCI论文50余篇,被他人引用一千余次。 主要学术成就如下:


    (1) 开发了多个植物生物信息工具及数据库,包括植物单链导向RNA(sgRNA)设计工具CRISPR-P,植物自然反义转录本NAT数据库,水稻及甜橙基因组等多个作物基因组数据库。


    (2)作为生物信息负责人参与多种作物基因组解析,包括甜橙、籼稻明恢63及珍汕97等,负责基因组的组装注释、转录组分析、重测序数据分析及生物信息平台构建工作。利用三代PacBio测序技术组装了国际上完整度和精准度最高的籼稻参考基因组。

    近些年发表的代表性论文:
1. Song JM, Lei Y, Shu CC, Jin W, Jing Y, Xing F, Liu H, Wang J, Xie W, Zhang J*, Chen LL*.Rice Information GateWay (RIGW): a comprehensive bioinformatics platform for indica rice genomes. Mol Plant,2017, accepted.
2. Liu H, Ding Y, Zhou Y, Jin W, Xie K*, Chen LL*. CRISPR-P 2.0: an improvedCRISPR-Cas9 tool for genome editing in plants. Mol Plant, 2017, 10(3):530-532.
3. Zhang J#, Chen LL#, Sun S, et al. Building two indica rice reference genomes with PacBiolong-read and Illumina paired-end sequencing data. Sci Data, 2016, 3:160076. #Co-first authors.
4. Zhang J#, Chen LL#, Xing F#, et al.Extensive sequence divergence between the reference genomes of two elite indicarice varieties Zhenshan 97 and Minghui 63. Proc Natl AcadSci U S A, 2016, 113(35):E5163-71. #Co-first authors.
5. Ding Y, Li H, Chen LL*, Xie K*. Recent advances in genome editing usingCRISPR/Cas9. Front Plant Sci., 2016, 7:703.
6. Xu XW, Zhou XH, Wang RR, Peng WL, An Y, Chen LL*. Functional analysis of longintergenic non-coding RNAs in phosphate-starved rice using competing endogenousRNA network. Sci Rep., 2016, 6:20715.
7. Han YC, Song JM, Wang L, Shu CC, Guo J*, Chen LL*. Prediction andcharacterization of protein-protein interaction network in Bacillus licheniformisWX-02. Sci Rep., 2016, 6:19486.
8. Guo J, Zhang H, Wang C, Chang JW, Chen LL*. Construction and analysis of agenome-scale metabolic network for Bacillus licheniformis WX-02. Res Microbiol.,2016, 167(4):282-9.
9. Guo J, Jing X, Peng WL, Nie Q, Zhai Y, Shao Z, Zheng L, Cai M, Li G, Zuo H,Zhang Z, Wang RR, Huang D, Cheng W, Yu Z, Chen LL*, Zhang J*. Comparative genomicand functional analyses: unearthing the diversity and specificity of nematicidal factors in Pseudomonas putida strain 1A00316. Sci Rep., 2016, 6:29211.
10. Guo J, Cheng G, Gou XY, Xing F, Li S, Han YC, Wang L, Song JM, Shu CC, ChenSW*, Chen LL*. Comprehensive transcriptome and improved genome annotation ofBacillus licheniformis WX-02. FEBS Lett., 2015, 589(18):2372-81.
11. Wang C, Deng ZL, Xie ZM, Chu XY, Chang JW, Kong DX, Li BJ, Zhang HY, Chen LL*. Construction of a genome-scale metabolic network of the plant pathogenPectobacteriumcarotovorum provides new strategies for bactericide discovery.FEBS Lett., 2015, 589(3):285-94.
12. Chen D, Fu LY, Zhang Z, Li G, Zhang H, Jiang L, Harrison AP, Shanahan HP, Klukas C, Zhang HY, Ruan Y*, Chen LL*, Chen M*. Dissecting the chromatin interactome of microRNA genes.Nucleic Acids Res., 2014, 42(5): 3028-43. 
13. Ding YD, Chang JW, Guo J, Chen D, Li S, Xu Q, Deng XX, Cheng YJ, Chen LL*. Prediction and functional analysis of the sweet orange protein-protein interaction network. BMC Plant Biol., 2014, 14(1): 213.
14. Lei Y, Lu L, Liu HY, Li S, Xing F, Chen LL*. CRISPR-P: A Web Tool for Synthetic Single-Guide RNA Design of CRISPR-System in Plants. Mol Plant, 2014, 7(9): 1494-1496.
15. Wang J, Chen D, Lei Y, Chang JW, Hao BH, Xing F, Li S, Xu Q, Deng XX, Chen LL*. Citrus sinensis annotation project (CAP): a comprehensive database for sweet orange genome. PLoS One, 2014, 9(1): e87723.
16. Guo FB, Lin Y, Chen LL*. Recognition of protein-coding genes based on Z-curve algorithms. Current Genomics, 2014, 15:95-103. 
17. Xu Q#, Chen LL #, Ruan X #, et al. The draft genome of sweet orange (Citrus sinensis). Nature Genetics, 2013, 45: 59-66. #Co-first authors.
18. Jiao WB, Huang D, XingF, HuY, Deng XX, Xu Q*, Chen LL*. Genome-wide characterization and expression analysis of genetic variants in sweet orange. Plant J., 2013, 75: 954-964.
19. Guo J, Li H, Chang JW, Lei Y, Li S, Chen LL*. Prediction and characterization of protein-protein interaction network in Xanthomonasoryzaepv. oryzae PXO99 A. Res Microbiol., 2013, 164(10):1035-44.
20. Lei Y, Kang SK, Gao J, JiaXS,  Chen LL*. Improved annotation of a plant pathogen genome Xanthomonasoryzae pv. oryzae PXO99A J BiomolStructDyn., 2013, 31: 342-350.
21. Chen D, Yuan C, Zhang J, Zhang Z, Bai L, Meng Y,Chen LL*, Chen M*. PlantNATsDB: a comprehensive database of plant natural antisense transcripts. Nucleic Acids Res., 2012, 40: D1187-1193.
22. Wang Q, Lei Y, Xu XW, Wang G*, Chen LL*, Theoretical prediction and experimental verification of protein-coding genes in plant pathogen genome Agrobacterium tumefaciens strain C58. PLoS One, 2012, 7: e43176.
23. Gao Z, Meng C, Zhang X, Xu D, Zhao Y, Wang Y, Lv H, Yang L, Chen LL*, Ye N. Differential expression of carotenogenic genes, associated changes on astaxanthin production and photosynthesis features induced by JA in H. pluvialis. PLoS One, 2012, 7(8): e42243.
24. Gao J, Chen LL*. Theoretical methods for identifying important functional genes in bacterial genomes. Res. Microbiol., 2010, 161: 1-8.
25. GaoN, Chen LL*,  JiHF,  WangW,  ChangJW,  Gao B,  ZhangL, ZhangSC,  Zhang HY*.DIGAP - a database of improved gene annotation for phytopathogens.BMC Genomics, 2010, 11: 54.
26. Chen LL*, Ma BG, GaoN. Reannotation of hypothetical ORFs in plant pathogen Erwiniacarotovora subsp. atrosepticaSCRI1043.FEBS J., 2008, 275: 198-206.
27. ChenLL, Wang GZ, Zhang HY. Sterol biosynthesis and prokaryotes-to- eukaryotes evolution.BiochemBiophys Res Commun., 2007, 363: 885-888.
28. Chen LL*. Identification of genomic islands in six plant pathogens. Gene, 2006, 374: 134-141.
29. Chen LL, Ou HY, Zhang R, Zhang CT. ZCURVE_CoV: a new system to recognize protein coding genes in coronavirus genomes, and its applications in analyzing SARS-CoV genomes. Biochem. Biophys. Res. Commun. 2003, 307: 382-388.
30. Chen LL, Zhang CT. Seven GC-rich microbial genomes adopt similar codon usage patterns regardless of their phylogenetic lineages. Biochem. Biophys. Res. Commun. 2003, 306: 310-317.
备注 2016年入选科技部“中青年科技创新领军人才”
2016年获华中农业大学研究生“教书育人奖”
2015年获湖北省杰出青年基金
2014年获“华中农业大学第五届先进女教职工”称号
2013年入选教育部“新世纪优秀人才支持计划”
担任Current Bioinfaormatics和JAEB编委,多次为国内外知名刊物审稿。