以拟南芥和水稻等为研究对象，运用分子生物学、遗传学、生物化学、细胞生物学和生物信息学等多种手段，研究植物与病原微生物和微生物组互作的分子机制。致力于解析植物免疫识别与抗病机制，植物-养分-微生物组三者的互作机制及益生微生物的开发利用。

1.Zhang Mengting, Wang Yingyue, Hu Yuanyi, Wang Huacai, Liu Yawen, Zhao Bingran, Zhang Jie, Fang Rongxiang, Yan Yongsheng*. (2023) Heterosis in root microbiota inhibits growth of soil-borne fungal pathogens in hybrid rice. Journal of integrative plant biology, 65:1059-1076.

2.Wang Huacai, Jiao Xiaoming, Zhang Xuan, Zhang Mengting, Liu Yawen, Chen Xiaoying, Fang Rongxiang, Yan Yongsheng* (2023) Ammonium protects rice against rice stripe virus by activating HDA703/OsBZR1-mediated BR signaling. Plant Science, 326:111504.

3.Kong Xiaoyu, Wang Huacai, Zhang Mengting, Chen Xiaoying, Fang Rongxiang*, Yan Yongsheng* (2022) A SA-regulated lincRNA promotes Arabidopsis disease resistance by modulating pre-rRNA processing. Plant Science, 316:111178.

4.Jiao Xiaoming, Wang Huacai, Kong Xiaoyu, Liu Yawen, Chen Xiaoying, Fang Rongxiang, Yan Yongsheng* (2020) Promotion of BR biosynthesis by miR444 is required for ammonium-triggered inhibition of root growth. Plant Physiology, 182: 1454-1466.

5.Wang Huacai, Jiao Xiaoming, Kong Xiaoyu, Liu Yawen, Chen Xiaoying, Fang Rongxiang*, Yan Yongsheng* (2020) The histone deacetylase HDA703 interacts with OsBZR1 to regulate rice brassinosteroid signaling, growth and heading date through repression of Ghd7 expression. Plant Journal, 104: 447-459.

6.Wang Huacai, Jiao Xiaoming, Kong Xiaoyu, Hamera Sadia, Wu Yao, Chen Xiaoying, Fang Rongxiang, Yan Yongsheng* (2016) A signaling cascade from miR444 to RDR1 in rice antiviral RNA silencing pathway. Plant Physiology, 170:2365-2377.

7. Yan Yongsheng, Wang Huacai, Hamera Sadia, Chen Xiaoying, Fang Rongxiang* (2014) miR444a has multiple functions in the rice nitrate-signaling pathway. Plant Journal, 78:44-55.

8. Yan Yongsheng, Zhang Yuman, Yang Kun, Sun Zongxiu, Fu Yaping, Chen Xiaoying, Fang Rongxiang* (2011) Small RNAs from MITE-derived stem-loop precursors regulate abscisic acid signaling and abiotic stress responses in rice. Plant Journal, 65:820-828.

9. Yan Yongsheng, Chen Xiaoying, Yang Kun, Sun Zongxiu, Fu Yaping, Zhang Yuman, Fang Rongxiang*  (2011) Overexpression of an F-box protein gene reduces abiotic stress tolerance and promotes root growth in rice. Molecular Plant, 4:190-197.

10. Yan Yongsheng, Lin Xiaodong, Zhang Yishun, Wang Lei, Wu Keqiang, Huang Shangzhi (2005) Isolation of peanut genes encoding arachins and conglutins by expressed sequence tags. Plant Science, 169:439-445.

1、国家自然科学基金面上项目，miR444调控低磷条件下水稻根际真菌微生物组形成的分子机制和应用研究，2025/01-2028/12

2、科技部国家重点研发计划，非病原微生物与作物的良性互作机制，2023/07-2027/12

3、中国科学院先导专项，水稻铵高效利用的分子网络解析，2019/01-2024/12

5、国家自然科学基金面上项目，组蛋白去乙酰化在水稻抗病毒免疫反应中的调控机制的研究，2017/01-2020/12

6、科技部重大专项，转基因生物新品种培育，2016/1-2020/12

7、国家自然科学基金青年科学基金项目，水稻Argonaute在小RNA介导的抗病毒免疫反应中的功能研究，2012.01-2014.12