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李磊(兼职教授)


基因组与生物技术研究中心   发布时间: 2017-07-18   信息员:  

李磊博士于2003年5月获得美囯密歇根州立大学遗传学专业博士学位,2003至2007年在耶鲁大学从事博士后研究。现为弗吉尼亚大学生物系助理教授,博士生导师,致力于microRNA相关基因网络的研究。先后在Nature Genetics,PNAS,Plant Cell, Genome Biology,The Plant Journal等权威刊物以第一作者或通讯作者发表文章多篇。主持了美国自然科学基金等项目。

主要研究方向:

1. microRNA相关基因网络的构建与功能研究

2. 基于microRNA基因网络的植物比较基因组学

3. 植物生殖系统与果实发育的遗传调控,基因网络与互作

代表论文: 

1. Zhao X, Zhang H, Li L. Identification and analysis of the proximal promoters of microRNA genes in Arabidopsis. Genomics. Published online.

2. Zhao X, Li L. Comparative analysis of microRNA promoters in Arabidopsis and rice. Genomics, Proteomics & Bioinformatics. Published online. 

3. Zhang H, Li L. SQUAMOSA Promoter Binding Protein-Like7 regulated microRNA408 is required for vegetative development in Arabidopsis. The Plant Journal. Published online.

4. Li L, Deng XW. Transcriptome profiling in rice. In “Genetics and Genomics of Rice.” Q Zhang, R Wing, Eds. Springer. In press. 

5. Zhang H, Deng XW, Li L. Analysis of allele-specific gene expression using a target-oriented tiling microarray assay. Methods in Molecular Biology. In press.

6. Aryal R, Yang X, Yu Q, Sunkar R, Li L, Ming R (2012) Asymmetric purine-pyrimidine distribution in cellular small RNA population of papaya. BMC Genomics 13, 682.

7. Yang X, Li L (2012) Analyzing the microRNA transcriptome in plants using deep sequencing data. Biology 1, 297-310.

8. Yang X, Zhang H, Li L (2012) Alternative mRNA processing increases the complexity of microRNA-based gene regulation in Arabidopsis. The Plant Journal 70, 421-431.

9. Yang X, Li L (2011) miRDeep-P: a computational tool for analyzing the microRNA transcriptome in plants. Bioinformatics 27, 2614-2615.

10. Oikawa PY, Giebel BM, O’Reilly Sternberg Lda S, Li L, Timko MP, Swart PK, Riemer DD, Mak JE, Lerdau MT (2011) Leaf and root pectin methylesterase activity and 13C/12C stable isotopic ratio measurements of methanol emissions give insight into methanol production in Lycopersicon esculentum. New Phytologist 191, 1031-1040.

11. Yang X, Zhang H, Li L (2011) Global analysis of gene-level microRNA expression in Arabidopsis using deep sequencing data. Genomics 98, 40-46.

12. Oikawa PY, Li L, Timko MP, Mak JE, Lerdau MT (2011) Short term changes in methanol emission and pectin methylesterase activity are not directly affected by light in Lycopersicon esculentum. Biogeosciences 8, 1023-1030.

13. Wu N, Yang X, Li L (2011) Identification of feed forward loops composed of microRNAs and transcription factors in Arabidopsis. Journal of Biochemistry and Molecular Biology in the Post-Genomic Era 1, 5.

14. Zhang H, He H, Wang X, Wang X, Yang X, Li L§, Deng XW§ (2011) Genome-wide mapping of the HY5-mediated gene networks in Arabidopsis that involve both transcriptional and post-transcriptional regulations. The Plant Journal 65, 346-358. § Co-corresponding.

15. He H, Zhang H, Wang X, Wu N, Yang X, Chen R, Li Y, Deng XW§, Li L§ (2010) Development of a versatile, target-oriented tiling microarray assay for measuring allele-specific gene expression. Genomics 96, 308-315. § Co-corresponding.

16. Wang X, Yu Z, Yang X, Deng XW, Li L (2009) Transcriptionally active gene fragments derived from potentially fast-evolving donor genes in the rice genome. Bioinformatics 25, 1215-1218. 

17. Peng ZY, Zhang H, Liu T, Dzikiewicz KM, Li S, Wang X, Hu G, Zhu Z, Wei X, Zhu QH, Sun Z, Ge S, Ma L, Li L§, Deng XW§ (2009) Characterization of the genome expression trends in the heading-stage panicle of six rice lineages. Genomics 93, 169-178. § Co-corresponding.

18. Li L,He H, Zhang J, Wang X, Bai S, Stolc V, Tongprasit W, Young ND, Yu O, Deng XW (2008) Transcriptional analysis of highly syntenic regions between Medicago truncatula and Glycine max using tiling microarrays. Genome Biology 9, R57. 

19. Zhang HY, He H, Chen LB, Li L, Liang MZ, Wang XF, Liu XG, He GM, Chen RS, Ma LG, and Deng XW (2008) A genome-wide transcription analysis reveals a close correlation of promoter INDEL polymorphism and heterotic gene expression in rice hybrids. Molecular Plant 1, 720-731.

20. Li L,Deng XW (2008) Microarray-based approaches to rice transcriptome analysis. In “Rice biology in the genomics era.” H Hirano, A Hirai, Y Sano, T Sasaki, Eds. Springer. p.37-52.

21. Kikuchi S, Wang G-L, Li L (2007) Genome-wide RNA expression profiling. In “Rice functional genomics: Challenges, progress and prospects.” N Upadhyaya, Eds. Springer. p.36-63.

22. Li L,Wang X, Sasidharan R, Stolc V, Deng W, He H, Korbel J, Chen X, Tongprasit W, Ronald P, Chen R, Gerstein M, Deng XW (2007) Global identification and characterization of transcriptionally active regions in the rice genome. PLoS ONE 2, e294.

23. Su N, He K, Jiao Y, Chen C, Zhou J, Li L, Bai S, Li X, Deng XW (2007) Distinct reorganization of the genome transcription associates with organogenesis of somatic embryo, shoots, and roots in rice. Plant Molecular Biology 63, 337-349.

24. Li L, Wang X, Stolc V, Li X, Zhang D, Su N, Tongprasit W, Li S, Cheng Z, Wang J, Deng XW (2006) Genome-wide transcription analyses in rice using tiling microarrays. Nature Genetics 38, 124-129.

25. Wang X, He H, Li L,Chen R,Deng XW, Li S (2006) NMPP - A user-customized Nimblegen microarray data processing pipeline. Bioinformatics 22, 2955-2957.

26. Zhang S, Chen C, Li L, Meng L, Singh J, Jiang N, Deng XW, He ZH, Lemaux PG (2005) Evolutionary expansion, gene structure, and expression of the rice wall-associated kinase gene family. Plant Physiology 139, 1107-1124.

27. Stolc V, Li L, Wang X, Li X, Su N, Tongprasit W, Han B, Xue Y, Li J, Snyder M, Gerstein M, Wang J, Deng XW (2005) A pilot study of transcription unit analysis in rice using oligonucleotide tiling-path microarray. Plant Molecular Biology 59, 137-149.

28. Li L, Wang X, Xia M, Stolc V, Su N, Peng Z, Li S, Wang J, Wang X, Deng XW (2005) Tiling microarray analysis of rice chromosome 10 to identify the transcriptome and relate its expression to chromosomal architecture. Genome Biology 6, R52.

29. Li L, Deng XW (2005) It runs in the family: regulation of brassinosteroid signaling by the BZR1-BES1 class of transcription factors. Trends in Plant Science 10, 266-268.

30. Li L, Wang X, Li X, Su N, Stolc V, Han B, Li J, Xue Y, Wang J, Deng XW (2005) Toward genome-wide transcriptional analysis in rice using MAS oligonucleotide tiling-path microarrays. In “Rice Is Life: Scientific Perspectives for the 21st Century.” K Toriyama, KL Heong, B Hardy, Eds. p.80-83.

31. Jiao Y, Jia P, Wang X, Su N, Yu S, Zhang D, Ma L, Feng Q, Jin Z, Li L, Xue Y, Cheng Z, Zhao H, Han B, Deng XW (2005) A tiling microarray expression analysis of rice chromosome 4 suggests a chromosome-level regulation of transcription. Plant Cell 17, 1641-1657.

32. Li L, Zhao Y, McCaig BC, Wingerd BA, Wang J, Whalon ME, Pichersky E, Howe GA (2004) The tomato homolog of CORONATINE-INSENSITIVE1 is required for the maternal control of seed maturation, jasmonate-signaled defense responses, and glandular trichome development.Plant Cell 16, 126-143. 

33. Li L,Deng XW (2003) The COP9 signalosome: an alternative lid for the 26S proteasome? Trends in Cell Biology 13, 507-509.

34. Li L, Li C, Lee GI, Howe GA (2002) Distinct roles for jasmonate synthesis and action in the systemic wound response of tomato. Proceedings of the National Academy of Sciences USA 99, 6416-6421.

35. Howe GA, Li L, Lee GI, Li C, Shaffer D (2002) Genetic dissection of induced resistance in tomato. In “Induced resistance in plants against insects and diseases”. A Schmitt, B Mauch-Mani, Eds. p.47-52.

36. Li L,Li C, Howe GA (2001)Genetic analysis of wound signaling in tomato: Evidence for a dual role of jasmonic acid in defense and female fertility. Plant Physiology 127, 1414-1417.

37. Li L, Howe GA (2001) Alternative splicing of prosystemin pre-mRNA produces two isoforms that are active as signals in the wound response pathway. Plant Molecular Biology 46, 409-419.

38. Howe GA, Lee GI, Itoh A, Li L,DeRocher A (2000) Cytochrome P450-dependent metabolism of oxylipins in tomato: cloning and expression of allene oxide synthase and fatty acid hydroperoxide lyase. Plant Physiology 123, 711-724.


 
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