教師基本信息：
姓名：張一婧
職稱：研究員
電子郵箱：zhangyijing@fudan.edu.cn
辦公地點：上海市楊浦區淞滬路2055號狗万外围充值 江灣校區生科院410
個人網頁/課題組主頁：
https://faculty.fudan.edu.cn/zhangyijing/zh_CN/index.htm
研究方向：功能表觀組與植物生物信息學
課題組致力於結合多維組學實驗與計算方案，及以基因編輯為代表的遺傳學技術，探索普通小麥多倍化與遠緣雜交的調控機製。歡迎對邏輯思考和科學研究有熱情的同學聯係實習或攻讀研究生，也希望這一階段的學習能夠為同學未來的科研與職業生涯奠定良好的基礎。
課題組目前的研究主要集中於以下三方麵
1.轉座子的表觀遺傳特征及生物學功能。課題組結合表觀組、染色質高級結構刻及調控組技術，在揭示轉座子維持染色質穩定性、調控網絡進化與分化等方麵取得一係列有趣的進展。
2.小麥多倍體優勢的分子機製。多倍體化是基因組進化的主要驅動力。我們結合多組學數據與遺傳實驗闡明小麥多倍化過程中的基因組和表觀組變化，最終的目標是揭示小麥多倍體優勢形成的潛在機製。
3.開發新的高通量實驗與計算方法挖掘並解析基因調控機製。
利用經典遺傳學手段挖掘和克隆控製重要性狀的基因並解析分子機製，周期相對比較長，通過有機整合新興的多種高通量測序方案和遺傳學技術，能夠實現重要基因的快速挖掘和調控網絡解析。
個人簡介
2003年獲中國海洋大學學士；2008年獲中國科學院遺傳與發育生物學研究所博士；2008-2013先後在中國農業大學、波士頓大學和哈佛醫學院，從事博士後研究；2013-2021年在中科院上海植物生理生態研究所任研究員及課題組長；2021年任万博英超狼队网官方网 研究員。作為通訊作者在Genome Research（期刊封麵文章），Plant Cell（編輯亮點點評文章），Genome Biology和Nucleic Acids Research等國際學術期刊發表論文20餘篇。
獲獎情況
2021 國家自然科學基金委/優秀青年基金項目資助
2015 上海市科技人才計劃項目/浦江人才計劃
2014 中國科學院上海生命科學院特殊（S類）人才計劃
招生專業：生物化學（表觀遺傳學）
代表性論文和論著：
1. Zhang Y#, Li Z#, Zhang Y#, Lin K#, Peng Y, Ye L,Zhuang Y, Wang M, Xie Y, Guo J, Teng W, Tong Y, Zhang W*, Xue Y*, Lang Z*, Zhang Y*: Evolutionary rewiring of the wheat transcriptional regulatory network by lineage-specific transposable elements. Genome Res 2021, 31(12):2276-2289.
2. Wang M#, Li Z#, Zhang Y#, Zhang Y#, Xie Y, Ye L, Zhuang Y, Lin K, Zhao F, Guo J, Teng W, Zhang W, Tong Y, Xue Y*, Zhang Y*: An atlas of wheat epigenetic regulatory elements reveals subgenome-divergence in the regulation of development and stress responses. The Plant Cell 2021, 33(4):865-881.
3. Jia J#, Xie Y#, Cheng J#, Kong C#, Wang M, Gao L, Zhao F, Guo J, Wang K, Li G, Cui D, Hu T, Zhao G*, Wang D*, Ru Z*, Zhang Y*: Homology-mediated Inter-chromosomal Interactions in Hexaploid Wheat Lead to Specific Subgenome Territories Following Polyploidization and Introgression. Genome Biology 2021, 22(1):26.
4. Ran X#, Zhao F#, Wang Y#, Liu J, Zhuang Y, Ye L, Qi M, Cheng J, Zhang Y*: Plant Regulomics: a data-driven interface for retrieving upstream regulators from plant multi-omics data. Plant J 2020. 101(1):237-248.
5. Li Z#, Wang M#, Lin K#, Xie Y#, Guo J, Ye L, Zhuang Y, Teng W, Ran X, Tong Y, Xue Y, Zhang W*, Zhang Y*: The bread wheat epigenomic map reveals distinct chromatin architectural and evolutionary features of functional genetic elements. Genome Biol 2019, 20(1):139.
6. Liu C#, Cheng J#, Zhuang Y, Ye L, Li Z, Wang Y, Qi M, Xu L, Zhang Y*: Polycomb repressive complex 2 attenuates ABA-induced senescence in Arabidopsis. Plant J 2019, 97(2):368-377.
7. Yue Zhou, Yuejun Wang, Kristin Krause, Tingting Yang, Joram A. Dongus, Yijing Zhang and Franziska Turck*. Telobox motifs recruit CLF/SWN-PRC2 for H3K27me3 deposition via TRB factors in Arabidopsis. Nature Genetics, 50(5):638-644
8. Qi M#, Li Z#, Liu C#, Hu W, Ye L, Xie Y, Zhuang Y, Zhao F, Teng W, Zheng Q, Fan Z, Xu L, Lang Z, Tong Y*, Zhang Y*: CGT-seq: epigenome-guided de novo assembly of the core genome for divergent populations with large genome. Nucleic Acid Res 2018, 46(18):e107.
9. Wang H#, Liu C#, Cheng J#, Liu J, Zhang L, He C, Shen W, Jin H*, Xu L*, Zhang Y*: Arabidopsis Flower and Embryo Developmental Genes are Repressed in Seedlings by Different Combinations of Polycomb Group Proteins in Association with Distinct Sets of Cis-regulatory Elements. PLoS Genet 2016, 12(1):e1005771.
10. Wang J#, Qi M#, Liu J#, Zhang Y*: CARMO: a comprehensive annotation platform for functional exploration of rice multi-omics data. Plant J 2015, 83(2):359-374.
11. Shao Z,#Zhang Y#, Yuan G, Orkin S*, Waxman D*: MAnorm: a robust model for quantitative comparison of ChIP-Seq data sets. Genome Biol 2012, 13(3):R16.
Yijing Zhang
Title：Researcher
Email：zhangyijing@fudan.edu.cn
Office address：410, College of Life Sciences, Jiangwan campus, Fudan University, No. 2055, Songhu Road, Yangpu District, Shanghai
Tel：86-21-54924204
Webpage：https://faculty.fudan.edu.cn/zhangyijing/zh_CN/index.htm
Research Interests： Functional epigenomics and plant
Bioinformatics:
The research group is committed to exploring the regulatory mechanism of common wheat polyploidy and distant hybridization by combining multi-omics experiments and computational solutions, as well as genetic technologies represented by gene editing. Students who are enthusiastic about logical thinking and scientific research are welcome to contact internships or pursue postgraduate studies. It is hoped that this stage of study can lay a good foundation for your future scientific research and careers.
Here are our current research foci:
1. Epigenetic features and functional implications of transposons in wheat. More than 85% wheat genome is composed of transposons and repeats, which plays a plethora of functions. We have made a series of interesting progress in revealing the impact of transposons on maintaining chromatin stability and regulating polyploid evolution and differentiation.
2. Molecular mechanisms of polyploidy advantage in wheat. Polyploidization is a major driver of genome evolution. We combined multi-omics data with genetic experiments to elucidate the genomic and epigenomic changes during wheat polyploidy, with the ultimate goal of uncovering the underlying mechanisms underlying the formation of wheat polyploidy.
2. Develop new high-throughput experimental and computational methods to mine and analyze gene regulatory mechanisms.
Personal Information：
2003, bachelor degree from Ocean University of China in 2003;
2008 Ph.D. degree from the Institute of Genetics and Developmental Biology, Chinese Academy of Sciences;
2008- 2013, postdoctoral research at China Agricultural University, Boston University and Harvard Medical School;
2013-2021, group leader in Institute of Physiological Ecology;
2021- , group leader at the School of Life Sciences, Fudan University.
Admissions Major：Biochemistry (Epigenetics)
Selected Publications:
1. Zhang Y#, Li Z#, Zhang Y#, Lin K#, Peng Y, Ye L,Zhuang Y, Wang M, Xie Y, Guo J, Teng W, Tong Y, Zhang W*, Xue Y*, Lang Z*, Zhang Y*: Evolutionary rewiring of the wheat transcriptional regulatory network by lineage-specific transposable elements. Genome Res 2021, 31(12):2276-2289.
2. Wang M#, Li Z#, Zhang Y#, Zhang Y#, Xie Y, Ye L, Zhuang Y, Lin K, Zhao F, Guo J, Teng W, Zhang W, Tong Y, Xue Y*, Zhang Y*: An atlas of wheat epigenetic regulatory elements reveals subgenome-divergence in the regulation of development and stress responses. The Plant Cell 2021, 33(4):865-881.
3. Jia J#, Xie Y#, Cheng J#, Kong C#, Wang M, Gao L, Zhao F, Guo J, Wang K, Li G, Cui D, Hu T, Zhao G*, Wang D*, Ru Z*, Zhang Y*: Homology-mediated Inter-chromosomal Interactions in Hexaploid Wheat Lead to Specific Subgenome Territories Following Polyploidization and Introgression. Genome Biology 2021, 22(1):26.
4. Ran X#, Zhao F#, Wang Y#, Liu J, Zhuang Y, Ye L, Qi M, Cheng J, Zhang Y*: Plant Regulomics: a data-driven interface for retrieving upstream regulators from plant multi-omics data. Plant J 2020. 101(1):237-248.
5. Li Z#, Wang M#, Lin K#, Xie Y#, Guo J, Ye L, Zhuang Y, Teng W, Ran X, Tong Y, Xue Y, Zhang W*, Zhang Y*: The bread wheat epigenomic map reveals distinct chromatin architectural and evolutionary features of functional genetic elements. Genome Biol 2019, 20(1):139.
6. Liu C#, Cheng J#, Zhuang Y, Ye L, Li Z, Wang Y, Qi M, Xu L, Zhang Y*: Polycomb repressive complex 2 attenuates ABA-induced senescence in Arabidopsis. Plant J 2019, 97(2):368-377.
7. Yue Zhou, Yuejun Wang, Kristin Krause, Tingting Yang, Joram A. Dongus, Yijing Zhang and Franziska Turck*. Telobox motifs recruit CLF/SWN-PRC2 for H3K27me3 deposition via TRB factors in Arabidopsis. Nature Genetics, 50(5):638-644
8. Qi M#, Li Z#, Liu C#, Hu W, Ye L, Xie Y, Zhuang Y, Zhao F, Teng W, Zheng Q, Fan Z, Xu L, Lang Z, Tong Y*, Zhang Y*: CGT-seq: epigenome-guided de novo assembly of the core genome for divergent populations with large genome. Nucleic Acid Res 2018, 46(18):e107.
9. Wang H#, Liu C#, Cheng J#, Liu J, Zhang L, He C, Shen W, Jin H*, Xu L*, Zhang Y*: Arabidopsis Flower and Embryo Developmental Genes are Repressed in Seedlings by Different Combinations of Polycomb Group Proteins in Association with Distinct Sets of Cis-regulatory Elements. PLoS Genet 2016, 12(1):e1005771.
10. Wang J#, Qi M#, Liu J#, Zhang Y*: CARMO: a comprehensive annotation platform for functional exploration of rice multi-omics data. Plant J 2015, 83(2):359-374.
11. Shao Z,#Zhang Y#, Yuan G, Orkin S*, Waxman D*: MAnorm: a robust model for quantitative comparison of ChIP-Seq data sets. Genome Biol 2012, 13(3):R16.