2011-2012年,Memorial Sloan Kettering Cancer Center,发育生物学系(Zhirong Bao),博士后;
小麦抗病基因的挖掘与育种利用可以帮助缩短抗病品种的培育周期。但传统的细胞学手段难以精细鉴定小麦基因组中的外源染色体片段,因此我们无法高效地研究来自亲缘或者远缘物种的抗病基因。2018年以来,一系列小麦及其亲缘物种的基因组项目相继完成,小麦抗病基因的克隆与功能研究面临前所未有的时代契机。本研究组将聚焦抗病基因,以远缘杂交材料为基础,利用组学与计算的手段在基因组层面上系统地解析外源基因在小麦抗病育种中的作用,揭示远缘杂交对于小麦抗病等重要农艺性状的分子与遗传基础,并与育种家合作探索提高小麦抗病育种效率的新思路。
已发表的部分论文: # 同等贡献,* 通讯作者
1. He F#, Wang W#, …, Akhunov E. Genomic variants affecting homoeologous gene expression dosage contribute to agronomic trait variation in allopolyploid wheat. Nature Communications 2022
2. He F, Pasam R, Shi F, …, Hayden M, Akhunov E. Exome sequencing highlights the role of wild relative introgression in shaping the adaptive landscape of the wheat genome. Nature Genetics 2019, 51, 896–904
3. Jordan K#, He F#, Fernandez M, Akhunova A, Akhunov E. Differential chromatin accessibility landscape reveals the structural and functional features of the allopolyploid wheat chromosomes. Genome Biology 2020, 21:176
4. He F, Yoo S, Wang D, Kumari S, Gerstein M, Ware D, Maslov S. Large-scale atlas of microarray data reveals the distinct expression landscape of different tissues in Arabidopsis. Plant Journal 2016, 86:472–480.
5. He F#, Zhou Y#, Zhang Z. Deciphering the Arabidopsis floral transition process by integrating a protein-protein interaction network and gene expression data. Plant Physiology 2010, 153(4):1492-505
6. He F, Zhang Y, Chen H, Zhang Z, Peng Y-L. The prediction of protein-protein interaction networks in rice blast fungus. BMC Genomics 2008, 9:519
7. Du Z#, He F#, Yu Z, Bowerman B, Bao Z. E3 ubiquitin ligases promote progression of differentiation during C. elegans embryogenesis. Developmental Biology 2015, 398:267–279
8. Xiao L, Zhao Z, He F*, Du Z*. Multivariable regulation of gene expression plasticity in metazoans. Open Biology 2019, 9(12):190150.
9. Qi H, Jiang Z, Zhang K, Yang S, He F*, Zhang Z*. PlaD: A Transcriptomics Database for Plant Defense Responses to Pathogens, Providing New Insights into Plant Immune System. Genomics, Proteomics&Bioinformatics 2018, 16(4):283-293
10. He F*, Karve AA, Maslov S, Babst BA. Large-Scale Public Transcriptomic Data Mining Reveals a Tight Connection between the Transport of Nitrogen and Other Transport Processes in Arabidopsis. Frontiers in Plant Science 2016, 11;7:1207.
11. He F*, Maslov S*. Pan-and core-network analysis of co-expression genes in a model plant. Scientific Reports 2016, 6:38956.
12. Arkin AP, et al. KBase: The United States Department of Energy Systems Biology Knowledgebase. Nature Biotechnology 2018, 36:566–569.
13. Wang D, He F, Maslov S, Gerstein M. DREISS: Using State-Space Models to Infer the Dynamics of Gene Expression Driven by External and Internal Regulatory Networks. PLoS Computational Biology 2016, 19;12(10):e1005146