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研究队伍

研究员

 

    鲁非


    研究员,博士生导师


    E-mail: flu@genetics.ac.cn


    研究方向:植物数量遗传及分子育种、统计基因组学、及计算生物学

 

  实验室主页:http://plantgeneticslab.weebly.com

 

教育和工作经历:

 

1999年就读于西北农林科技大学生物技术学硕连读专业,期间从事生物信息、群体遗传及数量遗传研究,2005年获得遗传学硕士学位。随后进入中国科学院遗传与发育学研究所攻读博士,期间从事水稻比较基因组学的研究,发表多篇论文,2010年获得遗传学博士学位以及中国科学院优秀毕业生称号,毕业论文选入中科院百篇优秀毕业论文。2010年至2014年在康奈尔大学从事博士后研究,2014年至2017年在康奈尔大学任研究助理,进行玉米、木薯、以及其他能源作物的数量遗传学及统计基因组学研究。论文先后发表在Nature Genetics, Nature Communications, Plos Genetics, PNAS, The Plant Cell等刊物上。2017年入选中央组织部青年千人计划,并回国担任中国科学院遗传与发育生物学研究所研究员。

 

研究内容:

 

为了保障粮食安全,应对不断增加的人口数量以及气候变化,鲁非博士领导的研究小组致力于开发并应用最前沿的科学技术,提高主要农作物的育种速度,帮助实现高效、环境友好、并可持续的农业发展模式。

 

研究小组以玉米、小麦、及水稻为模式,利用遗传学、基因组学、统计学、计算生物学、进化生物学等手段在方法学上不断创新,精细定位重要农艺性状的遗传控制位点,通过优化全基因组选择模型以及应用基因组编辑技术开发新一代植物育种体系。



近期发表论文:

(†Corresponding author; *Co-first author)

 

Punna Ramu†, Williams Esuma, Robert Kawuki, Ismail Y Rabbi, Chiedozie Egesi, Jessen V Bredeson, Rebecca S Bart, Janu Verma, Edward S Buckler, Fei Lu†. (2017). Cassava haplotype map highlights fixation of deleterious mutations during clonal propagation. Nature Genetics. In press.

 

Punna Ramu†, Williams Esuma, Robert Kawuki, Ismail Y Rabbi, Chiedozie Egesi, Jessen V Bredeson, Rebecca S Bart, Janu Verma, Edward S Buckler, Fei Lu†. (2016). Cassava HapMap: Managing genetic load in a clonal crop species. bioRxiv. doi: http://dx.doi.org/10.1101/077123

 

Candice N. Hirsch, Cory D. Hirsch, Alex B. Brohammer, Megan J. Bowman, Ilya Soifer, Omer Barad, Doron Shem-Tov, Kobi Baruch, Fei Lu, Alvaro G. Hernandez, Christopher J. Fields, Chris L. Wright, Klaus Koehler, Nathan Springer, Edward Buckler, C. Robin Buell, Natalia de Leon, Shawn M. Kaeppler, Kevin L. Childs, Mark Mikel. (2016). Draft Assembly of Elite Inbred Line PH207 Provides Insights into Genomic and Transcriptome Diversity in Maize. The Plant Cell. doi:10.1105/tpc.16.00353

 

Williams Esuma, Liezel Herselman, Maryke Tine Labuschagne, Punna Ramu, Fei Lu, Yona Baguma, Edward S. Buckler, Robert Sezi Kawuki. (2016). Genome-wide association mapping of provitamin A carotenoid content in cassava. Euphytica. DOI: 10.1007/s10681-016-1772-5

 

Li, Y.-x., Li, C., Bradbury, P. J., Liu, X., Lu, F., Romay, M. C., Glaubitz, J. C., Wu, X., Peng, B., Shi, Y., Song, Y., Zhang, D., Buckler, E. S., Zhang, Z., Li, Y. and Wang, T. (2016), Identification of genetic variants associated with maize flowering time using an extremely large multi-genetic background population. Plant J. doi:10.1111/tpj.13174

 

Fei Lu†, Maria C Romay, Jeff C Glaubitz, Peter J Bradbury, Rob J Elshire, Tianyu Wang, Yu Li, Yongxiang Li, Kassa Semagn, Xuecai Zhang, Alvaro G. Hernandez, Mark A. Mikel, Ilya Soifer, Omer Barad, Edward S Buckler†. (2015) High-resolution genetic mapping of maize pan-genome sequence anchors. Nature Communications. DOI:10.1038/ncomms7914

 

Guillaume P. Ramstein, Alexander E. Lipka, Fei Lu, Denise E. Costich, Jerome H. Cherney, Edward S. Buckler and Michael D. Casler. (2015) Genome-Wide Association Study Based on Multiple Imputation with Low-Depth Sequencing Data: Application to Biofuel Traits in Reed Canarygrass. G3: Genes | Genomes | Genetics. DOI: 10.1534/g3.115.017533

 

Glaubitz JC, Casstevens TM, Lu F, Harriman J, Elshire RJ, Sun Q, Buckler ES. (2014) TASSEL-GBS: A High Capacity Genotyping by Sequencing Analysis Pipeline. PLoS ONE 9(2): e90346.

 

Lipka AE, Lu F, Cherney JH, Buckler ES, Casler MD, and Costich DE (2014). “Accelerating the switchgrass (Panicum virgatum L.) breeding cycle using genomic selecting approaches”. PLoS ONE 9(11), e112227.

 

Lu F, Lipka AE, Elshire RJ, Glaubitz JC, Cherney JH, Casler MD, Buckler ES, Costich DE. (2013) Switchgrass genomic diversity, ploidy and evolution: novel insights from a network-based SNP discovery protocol. PLoS Genetics 9(1):e1003215.

 

Abhijit Sanyal*, Ammiraju S.S.Jetty*, Fei Lu*, Yeisoo Yu Teri Rambo, Jennifer Currie, Kristi Kollura, Hye-Ran Kim, Jinfeng Chen, Jianxin Ma, Phillip San Miguel, Mingsheng Chen, Rod A. Wing and Scott A. Jackson. (2010). Orthologous comparisons of the Hd1 region across genera reveal Hd1 gene lability within diploid Oryza species and disruptions to microsynteny in sorghum. MOL BIOL EVOL. DOI:10.1093/molbev/msq133

 

Jetty S.S. Ammiraju, Chuanzhu Fan, Yeisoo Yu, Xiang Song, Karen A. Cranston, Ana Clara Pontaroli, Fei Lu, Abhijit Sanyal, Ning Jiang, Teri Rambo, Jennifer Currie, Kristi Collura, Jayson Talag, Jeffrey L. Bennetzen, Mingsheng Chen, Scott Jackson, Rod A. Wing. (2010). Spatio-temporal patterns of genome evolution in allotetraploid species of the genus Oryza. The Plant Journal. DOI: 10.1111/j.1365-313X.2010.04251.x

 

Lu, F. *, Ammiraju, J. S. *, Sanyal, A. *, Zhang, S. *, Song, R., Chen, J. *, Li, G., Sui, Y., Song, X., Cheng, Z., de Oliveira, A. C., Bennetzen, J. L.,Jackson, S., Wing, R. A., and Chen, M. (2009). Comparative sequence analysis of the MONOCULM1 orthologous regions in fourteen Oryza genomes. Proc Natl Acad Sci USA. 106(6):2071-6.

 

Ammiraju, J. S. *, Lu, F *., Sanyal, A. *, Yu, Y., Song, X., Jiang, N., Pontaroli, A. C., Rambo, T., Currie, J., Collura, K., Talag, J., Fan, C., Goicoechea, J. L., Zuccolo, A., Chen, J., Bennetzen, J. L., Chen, M., Jackson, S., and Wing, R. A. (2008). Dynamic Evolution of Oryza Genomes Is Revealed by Comparative Genomic Analysis of a Genus-Wide Vertical Data Set. The Plant Cell 10.1105/tpc.1108.063727

 

Lukas A. Mueller, René Klein Lankhorst, Steven D. Tanksley, James J. Giovannoni, Ruth White, Julia Vrebalov, Zhangjun Fei, Joyce van Eck, Robert Buels, Adri A. Mills, Naama Menda, Isaak Y. Tecle, Aureliano Bombarely, Stephen Stack, Suzanne M. Royer, Song-Bin Chang, Lindsay A. Shearer, Byung Dong Kim, Sung-Hwan Jo, Cheol-Goo Hur, Doil Choi, Chang-Bao Li, Jiuhai Zhao, Hongling Jiang, Yu Geng, Yuanyuan Dai, Huajie Fan, Jinfeng Chen, Fei Lu, et al. (2009). A Snapshot of the Emerging Tomato Genome Sequence. The Plant Genome. 10.3835/plantgenome2008.08.0005: 78-92

 

Li C-B, Zhao JH, Jiang HL, Geng Y, Dai YY, Fan HJ,  Zhang DF, Chen JF, Lu F, Shi JF, Sun SH, Chen JJ, Yan XH, Lu C, Chen MS, Cheng ZK, Ling HQ, Wang Y, Xue YB, Li C. (2008). A snapshot of the Chinese SOL Project. Journal of Genomics and Genetics. 35: 387-390

 

Chen JF, Lu F, Chen SS, Tao SH. Significant positive correlation between the recombination rate and GC content in the human pseudoautosomal region. Genome (2006) 49:413–419.

 

 

软件开发

Fei Lu, Jeff Glaubitz, James Harriman, Terry Casstevens, Rob Elshire. TASSEL 3.0 Universal Network Enabled Analysis Kit (UNEAK) pipeline. (2012).

https://bytebucket.org/tasseladmin/tassel-5-source/wiki/docs/TasselPipelineUNEAK.pdf

 

Fei Lu, Jeff Glaubitz, Terry Casstevens, Qi Sun, Robert Bukowski, Katie Hyma, Ed Buckler. TASSEL 5.0 Pan-genome Atlas (PanA) pipeline. (2014).

https://bytebucket.org/tasseladmin/tassel-5-source/wiki/docs/TasselPipelinePanGenomeAtlas.pdf

 

Fei Lu. FastCall. (2016)

https://github.com/Fei-Lu/FastCall

附件

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