1999年, 西北农业大学获农学学士学位; 2002年, 西北农林科技大学获农学硕士学位; 2007年, 中科院上海生命科学院植物生理生态研究所获理学博士学位。2007年-2013年，在日本名古屋大学生物机能开发利用研究中心从事博士后研究。2014年起任中国科学院植物研究所研究员，博士研究生导师，“植物遗传与功能基因组学”研究组组长。曾荣获2008年中国科学院优秀博士学位论文和2009年中国百篇优秀博士学位论文奖，以及2012年国家自然科学二等奖（排名第四）。任《西北植物学报》和Molecular Breeding 编委。在Nature、Nature Genetics、Nature Plants、Developmental Cell、Nature Communications、Cell Research、Molecular Plant、Plant Cell和PNAS等国内外著名学术期刊上公开发表研究论文二十余篇，申请或授权国内专利5项，国际专利1项。 

主要研究工作： 

本研究组主要从事水稻重要性状籽粒大小和种子活力（耐贮藏特性）的遗传和功能基因组学研究。现阶段主要包括以下内容的工作：1、水稻粒型和粒重调控的分子机理和基因网络；2、产量有利粒型和粒重性状位点的聚合研究；3、作物种子耐贮藏的遗传和分子机理研究。

科研项目：

（1）国家自然科学基金面上项目，分子模块ARF12-bZIP23介导的脱落酸和生长素信号互作调控水稻种子活力的遗传机理研究（2023-01至2026-12），主持。

（2）国家自然科学基金区域创新发展联合基金，水稻耐穗萌基因的挖掘与育种利用（2023.01至2026.12），参加。

（3）中科院战略性先导专项（A）类项目，种子精准设计与创造（2019-11至2024-12），参加。

（4）国家自然科学基金重大研究计划集成项目，水稻籽粒大小调控的分子遗传网络解析（2018-01至2019-12），参加。

（5）科技部国家重点研发计划，增加粒重的遗传基础及其调控网络（2016-07至2021-06），参加。

（6）国家自然科学基金重大研究计划培育项目，组蛋白乙酰化修饰控制水稻粒型和粒重的遗传调控网络研究（2015-01至2017-12），主持。

（7）国家自然科学基金面上项目，组蛋白乙酰转移酶OsglHAT1调控水稻粒型和粒重的分子机制，（2015-01至2018-12），主持。

（8）科技部973项目，水稻重要粒型基因调控种子发育的信号网络（2014-01至2018-08），参加。

（9）中科院战略性先导专项（A类）项目，水稻高产粒型分子模块系统解析（2013-08至2018-12），参加。

研究论文（注*为通讯作者，§为共同第一作者）：

2024

Bai C§, Wang GJ§, Feng XH§, Gao Q§, Wang WQ, Xu R, Guo SJ, Shen SY, Ma M, Lin WH, Liu CM, Li YH, Song XJ.* 2024. OsMAPK6 phosphorylation and CLG1 ubiquitylation of GW6a non-additively enhance rice grain size through stabilization of the substrate. Nature Communications, 15: 4300

Shen SY, Ma M, Bai C, Wang WQ, Zhu RB, Gao Q, Song XJ*. 2024. Optimizing rice grain size by attenuating phosphorylation-triggered functional impairment of a chromatin modifier ternary complex. Developmental Cell, 59: 448-464

Ying J§, Qin Y§, Zhang F§, Duan L, Cheng P, Yin M, Wang Y, Tong X, Huang J, Li Z, Song XJ, Zhang J*. 2024. A weak allele of TGW5 confers higher seed propagations and efficient size-based seed sorting for hybrid rice production, Plant Communications, doi: https://doi.org/10.1016/j.xplc.2024.100811.

Meng QL, Qiang CG, Li JL, Geng MF, Ren NN, Cai Z, Wang MX, Jiao ZH, Zhang FM, Song XJ, Ge S. 2024. Genetic architecture of ecological divergence between Oryza rufipogon and Oryza nivara. Molecular Ecology, 00, e17268. https://doi.org/10.1111/mec.17268

2023

Zheng LY§, Wu JL§, Wang AB§, Zhang YY, Liu ZP, Ling HQ*, Song XJ*, Li YH* 2023. The SOD7/DPA4-GIF1 module coordinates organ growth and iron uptake in Arabidopsis, Nature Plants, 9: 1318–1332

Ma M§, Shen SY§, Bai C§, Wang WQ, Feng XH, Ying JZ, Song XJ* 2023. Control of grain size in rice by TGW3 phosphorylation of OsIAA10 through potentiation of OsIAA10-OsARF4-mediated auxin signaling. Cell Reports, 42: 112187

2022

Wang WQ, Xu DY, Sui YP, Ding XH, Song XJ*. 2022. A multiomic study uncovers a bZIP23-PER1A–mediated detoxification pathway to enhance seed vigor in rice. Proc. Nat. Acad. Sci. U.S.A., 119: e2026355119.

2021

Gao Q, Zhang N§, Wang WQ, Shen SY, Bai C, Song XJ*. 2021. The ubiquitin interacting motif type ubiquitin receptor HDR3 interacts with and stabilizes the histone acetyltransferase GW6a to control grain size in rice.Plant Cell, 33: 3331-3347

Cheng P§, Cao LJ§, Bai C, Ashikari M, Song XJ*. 2021. Fine mapping and characterization of two novel quantitative trait loci for early seedling growth in rice. Planta, 253: 56

Wang WQ, Wang Y, Song XJ, Zhang Q, Cheng HY, Liu J*, Song SQ*. 2021. Proteomic analysis of desiccation tolerance and its reestablishment in different embryo axis tissues of germinated pea seeds.J. Proteome Res.,20: 23522363.

2020

Wang GJ§, Wang Y§, Ying JZ, Song XJ*. 2020. Identification of qLG2, qLG8, and qWG2 as novel quantitative trait loci for grain shape and the allelic analysis in cultivated rice. Planta, 252: 18.

2018

Ying JZ^§, Ma M^§, Bai C^§, Huang XH, Liu JL, Fan YY, Song XJ*. 2018. TGW3, a major QTL that negatively modulates grain length and weight in rice. Mol. Plant, 11: 750-753.

Qin YB, Cheng P, Cheng YC, Feng X, Huang DR, Huang TX, Song XJ*, Ying JZ*. 2018. QTL-seq identified a major QTL for grain length and weight in rice using near isogenic F2 population. Rice Sci., 25: 121-131.

2017

Song XJ*. 2017. Crop seed size: BR matters. Mol. Plant, 10: 668-669.

2016

Yamaguchi M, Fujimoto H, Hirano K, Araki-Nakamura S, Ohmae-Shinohara K, Fujii A, Tsunashima M, Song XJ, Ito Y, Nagae R, Wu JZ, Mizuno H, Yonemaru J, Matsumoto T, Kitano H, Matsuoka M, Kasuga S, Sazuka T*. 2016. Sorghum Dw1, an agronomically important gene for lodging resistance, encodes a novel protein involved in cell proliferation. Sci. Rep., 6: 28366.

2015及以前

Song XJ, Kuroha T, Ayano M, Furuta T, Nagai K, Komeda N, Segami S, Miura K, Ogawa D, Kamura T, Suzuki T, Higashiyamai T, Yamasaki M, Mori H, Inukai Y, Wu JZ, Kitano H, Sakakibara H, Jacobsen S, Ashikari M. 2015. Rare allele of a novel histone H4 acetyltransferase enhances grain weight, yield and plant biomass in rice. Proc. Natl. Acad. Sci. USA, 112:76-81. 

Seki M, Feugier F, Song XJ, Ashikari M, Nakamura H, Ishiyama K, Yamaya T, Inari-Ikeda M, Kitano H, Satake A. 2015. A mathematical model of phloem sucrose transport as a new tool for designing rice panicle structure for high grain yield. Plant Cell Physiology, 56: 605-619. 

Seki Motohide*, Gabriel Feugier Francois, Song Xianjun, Ashikari Motoyuki, Nakamura Haruka, Ishiyama Keiki, Yamaya Tomoyuki, Inari-Ikeda Mayuko, Kitano Hidemi, Satake Akiko. 2014. A mathematical model of phloem sucrose transport as a new tool for designing rice panicle structure for high grain yield. Plant and Cell Physiology, DOI: 10.1093/pcp/pcu191.

Qi P.§, Lin Y.L.§, Song X.J.§, Shen J.B., Huang W., Shan J.X., Zhu M.Z., Jiang L.W., Gao J.P. & Lin H.X.*.2012.The novel quantitative trait locus GL3.1 controls rice grain size and yield by regulating cyclin-T1;3. Cell Res., 22, 1666-80. (# Contributed equally). 

Miura K, Ikeda M, Matsubara A, Song X.J., Ito M, Asano K, Matsuka M, Kitano H & Ashikari M. 2010. OsSPL14 promotes panicle branching and higher grain productivity in rice. Nat. Genet., 42, 545-550. 

Hattori Y., Nagai K., Furukawa S., Song X.J., Kawano R., Sakakibara H., Wu J.Z., Matsumoto T., Yoshimura A., Kitano H., Matsuoka M., Mori H., Ashikari M. 2009. The ethylene response factors SNORKEL1 and SNORKEL2 allow rice to adapt to deep water. Nature, 460, 1026-1030. 

Song X.J. & Matsuoka M. 2009. Bar the windows: an optimized strategy to survive drought and salt adversities. Genes & Dev., 23, 1709-1713. 

SongX.J. & Ashikari M. 2008. Toward an optimum return from crop plants. Rice, 1, 135-143. 

Song X.J.§, Huang W.§, Shi M., Zhu M.Z. & Lin H.X. * .2007. A QTL for rice grain width and weight encodes a previously unknown RING-type E3 ubiquitin ligase. Nat. Genet.,39, 623-630(# Contributed equally).