|
涂晓雨
职 称:长聘教轨副教授,博士生导师
所属学科:园艺学
研究方向:植物功能基因组学
电子信箱:xiaoyutu@sjtu.edu.cn
联系地址:农生科创大楼B315A室
|
个人简介:
2021.09 至今 新葡的京集团8814,长聘教轨副教授,课题组长、博导
2019.11-2021.08 香港中文大学 / 中国科学院华南植物园,博士后
2018.05-2019.07 康奈尔大学Boyce Thompson Institute,访问学者
2015.11-2019.10 香港中文大学,博士
招生/招聘信息:
研究生:23级名额已满,欢迎申请24级硕士、博士的同学提前联系;
本科生:长期接收有继续深造打算的同学入组参与研究、开展毕设;
工作人员:开放专职科研(助理研究员)岗位1个。
教授课程:
《生物信息学》,本科生
《表观遗传与基因组调控》,研究生
研究方向:
C4植物(玉米、高粱等)代表着陆地上一类高生产力植物。相较于其祖先C3植物(水稻、小麦等),C4植物对光、水和氮的利用效率更高,这主要得益于其在光合作用暗反应中补充的C4途径,使得能在光合碳同化关键酶RuBisCO周围浓缩CO2,进而有效减少光呼吸。目前已知的所有编码C3光合酶的基因早已存在于C3植物中,只是它们在C3植物中的表达水平相对较低,且没有细胞差异性,仅充当碳氮代谢的看家基因。大多数C4植物的碳浓缩机制,是通过光合酶和代谢产物在叶肉细胞和维管束鞘细胞的协同分工来实现的。因此,将C4光合的高效碳浓缩机制在稻谷等C3植物中进行跨物种重构的关键不在基因,而是基因表达差异背后的分子调控。围绕上述问题,本课题组以玉米、高粱和谷子等为C4模式,利用我们开发的(单细胞)高通量测序技术,结合分子生物学、遗传学、生物信息学和人工智能,从以下两方面展开研究:
1)表观遗传调控(染色质开放性及三维结构、组蛋白翻译后修饰、DNA甲基化等);
2)遗传调控(转录因子的调控网络构建、共结合、结合足迹等)。
承担项目:
- 主持,国家自然科学基金面上项目(32370247),2024.01-2027.12
- 入选,新葡的京集团8814“2030计划”C类项目,2023
- 入选,上海市“海外高层次人才引进计划”,2022
- 主持,国家自然科学基金青年项目(32100438),2022.01-2024.12
- 主持,新葡的京集团8814双一流建设项目,2021.09-2024.12
- 入选,广东省“珠江人才计划”(博士后资助项目),2021
- 主持,中国博士后科学基金会特别资助(站中),2021.07-2021.08
- 主持,中国博士后科学基金会面上资助,2020.07-2021.08
第一/通讯作者论文(†, 共同一作; *, 通讯作者; _, Tu lab成员):
- Tu, X., Ren, S.†, Shen, W.†, Li, J.†, Li, Y., Li, C., Li, Y., Zong, Z., Xie, W., Grierson, D., Fei, Z., Giovannoni, J., Li, P.*, Zhong, S.*; Limited conservation in cross-species comparison of GLK transcription factor binding suggested wide-spread cistrome divergence, Nature Communications, 2022, 13:7632 (Plants and Agriculture领域Featured Article)
- Tu, X., Mejía-Guerra, M.K.†*, Valdes Franco, J.A., Tzeng, D., Chu, P., Shen, W., Wei, Y., Dai, X., Li, P.*, Buckler, E.S., Zhong, S.*; Reconstructing the maize leaf regulatory network using ChIP-seq data of 104 transcription factors, Nature Communications, 2020, 11:5089
- Tu, X., Marand, A.P.†, Schmitz, R.J.*, Zhong, S.*; A combinatorial indexing strategy for low-cost epigenomic profiling of plant single cells, Plant Communications, 2022, 3:100308
- Zhang, Y., Ma, M.†, Liu, M.†, Sun, A.†, Zheng, X., Liu, K., Yin, C., Li, C., Jiang, C.*, Tu, X.* (共同通讯), Fang, Y.*; Histone H2A monoubiquitination marks are targeted to specific sites by cohesin subunits in Arabidopsis, Nature Communications, 2023, 14:1209 (Plants and Agriculture领域Featured Article)
- Dong, P., Tu, X.† (共同一作), Chu, P.†, Lü, P., Zhu, N., Grierson, D., Du, B., Li, P.*, Zhong, S.*; 3D chromatin architecture of large plant genomes determined by local A/B compartments, Molecular Plant, 2017, 10(12):1497-1509 (ESI高被引)
- Dong, P., Tu, X.† (共同一作), Li, H., Zhang, J., Grierson, D., Li, P.*, Zhong, S.*; Tissue-specific Hi-C analyses of rice, foxtail millet and maize suggest non-canonical function of plant chromatin domains, Journal of Integrative Plant Biology, 2020, 62(2):201-217 (ESI高被引)
- Dai, X., Tu, X.† (共同一作), Du, B., Dong, P., Sun, S., Wang, X., Sun, J., Gang, L., Lu, T.*, Zhong, S.*, Li, P.*; Chromatin and regulatory differentiation between bundle sheath and mesophyll cells in maize, Plant Journal, 2022, 109(3):675-692
其他作者论文
- Dong, P., Tu, X., Liang, Z., Kang, B., Zhong, S.*; Plant and animal chromatin three-dimensional organization: similar structures but different functions, Journal of Experimental Botany, 2020, 71(17):5119-5128
- Sun, A., Yin, C., Ma, M., Zhou, Y., Zheng, X., Tu, X., Fang, Y.; Feedback regulation of auxin signaling through the transcription of H2A.Z and deposition of H2A.Z to SMALL AUXIN UP RNAs in Arabidopsis, New Phytologist, 2022, 236(5):1721-1733
- Wang, X., Wang, X.†*, Sun, S., Tu, X., Lin, K., Qin, L., Wang, X., Li, G.*, Zhong, S.*, Li, P.*; Characterization of regulatory modules controlling leaf angle in maize, Plant Physiology, 2022, 190(1):500-515
- Dai, X., Xu, Z., Liang, Z., Tu, X., Zhong, S., Schnable, J.C.*, Li, P.*; Non‐homology‐based prediction of gene functions in maize (Zea mays ssp. mays), Plant Genome, 2020, 13(2):e20015
- Ding, Z., Weissmann, S., Wang, M., Du, B., Huang, L., Wang, L., Tu, X., Zhong, S., Myers, C., Brutnell, T.P., Sun Q.*, Li, P.*; Identification of Photosynthesis-Associated C4 Candidate Genes through Comparative Leaf Gradient Transcriptome in Multiple Lineages of C3 and C4 Species, PLoS ONE, 2015, 10:e0140629