发表论文
Publications
2026
A distorter–restorer system drives quantitative reproductive isolation in rice
Yu Zhang#*, Ying Yang#, Chuanlin Shi#,, Qiuhong Pu, Jiawu Zhou, Wenchuang He, Peng Xu, Qiang Xu, Fengyi Hu, Xuanchen Song, Xiaohan Jiang, Yonggang Lv, Liu He, Xianneng Deng, Lianguang Shang*, Dayun Tao*
Prime editing of an RR26-responsive cis-element enhances DAHPS2 expression and submergence tolerance in rice through the shikimate pathway
Dongdong Chen#, Linlin Hou#, Zhennan Qiu#, Qiang Xu, Qiaoyan Wang, Man Li, Zhiqi Hao, Pengfei Dong, Guangheng Zhang, Jiang Hu, Zhenyu Gao, Guojun Dong, Deyong Ren, Lan Shen, Yuchun Rao, Qing Li, Yuhang Zhang, Qiang Zhang, Longbiao Guo, Lianguang Shang*, Qian Qian*, Li Zhu*
Time‐Efficient and Informatic‐Skill‐Light Gap‐Filling for Telomere‐to‐Telomere Genome Assembly
Dong Xu#, Xianjia Zhao#, Lianguang Shang#, Shaolong Tian#, Yanchun Li#, Huaming Wen, Qiang Xu, Dongxi Li*, Weihua Pan*
Advanced Science
13:e18319
2025
Genetic resource utilization in wild rice species: Genomes and gene bank
Xiaoxi Cai#, Wenchuang He#, Qian Qian* and Lianguang Shang*
New Crops
GWAS meta-analysis using a graph-based pan-genome enhanced gene mining efficiency for agronomic traits in rice
Longbo Yang#, Wenchuang He#, Yiwang Zhu#, Yang Lv#, Yilin Li, Qianqian Zhang, Yifan Liu, Zhiyuan Zhang, Tianyi Wang, Hua Wei, Xinglan Cao, Yan Cui, Bin Zhang, Wu Chen, Huiying He, Xianmeng Wang, Dandan Chen, Congcong Liu, Chuanlin Shi, Xiangpei Liu, Qiang Xu, Qiaoling Yuan, Xiaoman Yu, Hongge Qian, Xiaoxia Li, Bintao Zhang, Hong Zhang, Yue Leng, Zhipeng Zhang, Xiaofan Dai, Mingliang Guo, Juqing Jia, Qian Qian*, Lianguang Shang*
Nature Communications
2024
BTA2 controls tiller angle and the shoot gravity response through regulating auxin content and distribution in rice
Zhen Li#, Junhua Ye#, Qiaoling Yuan#, Mengchen Zhang, Xingyu Wang, Jing Wang, Tianyi Wang, Hongge Qian, Xinghua Wei, Yaolong Yang, Lianguang Shang*, Yue Feng*
Journal of Integrative Plant Biology
Programmable RNA N6-methyladenosine editing with CRISPR/dCas13a in plants
Chuanlin Shi#, Wenli Zou#, Xiangpei Liu#, Hong Zhang#, Xiaofang Li, Guiling Fu, Qili Fei*, Qian Qian*, Lianguang Shang*
Plant Biotechnology Journal
A centromere map based on super pan-genome highlights the structure and function of rice centromeres
Yang Lv#, Congcong Liu#, Xiaoxia Li#, Yueying Wang#, Huiying He, Wenchuang He, Wu Chen, Longbo Yang, Xiaofan Dai, Xinglan Cao, Xiaoman Yu, Jiajia Liu, Bin Zhang, Hua Wei, Hong Zhang, Hongge Qian, Chuanlin Shi, Yue Leng, Xiangpei Liu, Mingliang Guo, Xianmeng Wang, Zhipeng Zhang, Tianyi Wang, Bintao Zhang, Qiang Xu, Yan Cui, Qianqian Zhang, Qiaoling Yuan, Noushin Jahan, Jie Ma, Xiaoming Zheng, Yongfeng Zhou, Qian Qian*, Longbiao Guo*, Lianguang Shang*
Widespread inversions shape the genetic and phenotypic diversity in rice
Wenchuang He#, Huiying He#, Qiaoling Yuan#, Hai Zhang#, Xiaoxia Li, Tianyi Wang, Yingxue Yang, Longbo Yang, Yuting Yang, Xiangpei Liu, Hua Wei, Hong Zhang, Bin Zhang, Mingliang Guo, Yue Leng, Chuanlin Shi, Yang Lv, Wu Chen, Xianmeng Wang, Zhipeng Zhang, Bohui Yu, Bintao Zhang, Qiang Xu, Hongge Qian, Yongfeng Zhou, Shaokui Wang*, Qian Qian*, Lianguang Shang*
Science Bulletin
Identification of salt tolerance-associated presence-absence variations in the OsMADS56 gene through the integration of DEGs dataset and eQTL analysis
Yuchao Cui#, Yarong Lin#, Hua Wei#, Yuehan Pan#, Huiying He, Hongge Qian, Longbo Yang, Xinglan Cao, Zhipeng Zhang, Xiaosi Zeng, Tianyi Wang, Wenchuang He, Xiangpei Liu, Chuanlin Shi, Qiaoling Yuan, Xiaoman Yu, Liang Chen, Feng Wang, Yiwang Zhu*, Qian Qian*, Lianguang Shang*
New Phytologist
Uncovering key salt-tolerant regulators through a combined eQTL and GWAS analysis using the super pan-genome in rice
Hua Wei#, Xianmeng Wang#, Zhipeng Zhang#, Longbo Yang#, Qianqian Zhang#, Yilin Li, Huiying He, Dandan Chen, Bin Zhang, Chongke Zheng, Yue Leng, Xinglan Cao, Yan Cui, Chuanlin Shi, Yifan Liu, Yang Lv, Jie Ma, Wenchuang He, Xiangpei Liu, Qiang Xu, Qiaoling Yuan, Xiaoman Yu, Tianyi Wang, Hongge Qian, Xiaoxia Li, Bintao Zhang, Hong Zhang, Wu Chen, Mingliang Guo, Xiaofan Dai, Yuexing Wang, Xiaoming Zheng, Longbiao Guo, Xianzhi Xie*, Qian Qian*, Lianguang Shang*
A pan-TE map highlights transposable elements underlying domestication and agronomic traits in Asian rice
Xiaoxia Li#, Xiaofan Dai#, Huiying He#, Yang Lv#, Longbo Yang#, Wenchuang He, Congcong Liu, Hua Wei, Xiangpei Liu, Qiaoling Yuan, Xianmeng Wang, Tianyi Wang, Bintao Zhang, Hong Zhang, Wu Chen, Yue Leng, Xiaoman Yu, Hongge Qian, Bin Zhang, Mingliang Guo, Zhipeng Zhang, Chuanlin Shi, Qianqian Zhang, Yan Cui, Qiang Xu, Xinglan Cao, Dandan Chen, Yongfeng Zhou*, Qian Qian*, Lianguang Shang*
National Science Review
Population-level exploration of alternative splicing and its unique role in controlling agronomic traits of rice
Hong Zhang#, Wu Chen#, De Zhu#, Bintao Zhang#, Qiang Xu#, Huiying He, Xiaofan Dai, Yilin Li, Wenchuang He, Yang Lv, Longbo Yang, Xinglan Cao, Yan Cui, Yue Leng, Hua Wei, Xiangpei Liu, Bin Zhang, Chuanlin Shi, Xianmeng Wang, Mingliang Guo, Zhipeng Zhang, Xiaoxia Li, Congcong Liu, Qiaoling Yuan, Tianyi Wang, Xiaoman Yu, Hongge Qian, Qianqian Zhang, Dandan Chen, Guanjing Hu*, Qian Qian*, Lianguang Shang*
The Plant Cell
The pan-tandem repeat map highlights multiallelic variants underlying gene expression and agronomic traits in rice
Huiying He#, Yue Leng#, Xinglan Cao#, Yiwang Zhu#, Xiaoxia Li, Qiaoling Yuan, Bin Zhang, Wenchuang He, Hua Wei, Xiangpei Liu, Qiang Xu, Mingliang Guo, Hong Zhang, Longbo Yang, Yang Lv, Xianmeng Wang, Chuanlin Shi, Zhipeng Zhang, Wu Chen, Bintao Zhang, Tianyi Wang, Xiaoman Yu, Hongge Qian, Qianqian Zhang, Xiaofan Dai, Congcong Liu, Yan Cui, Yuexing Wang, Xiaoming Zheng, Guosheng Xiong, Yongfeng Zhou, Qian Qian*, Lianguang Shang*
2023
Comparative metabolomics combined with physiological analysis revealed cadmium tolerance mechanism in indica rice (Oryza sativa L.)
Weixia Chang, Wei Wang, Zhangsheng Shi, Guodong Cao, Xingchen Zhao, Xiuli Su, Yi Chen, Jiabin Wu, Zhu Yang, Chaolei Liu, Lianguang Shang*, and Zongwei Cai*
mRNA cleavage by 21-nucleotide phasiRNAs determines temperature-sensitive male sterility in rice
Chuanlin Shi#, Wenli Zou#, Yiwang Zhu#, Jie Zhang#, Chong Teng, Hua Wei, Huiying He, Wenchuang He, Xiangpei Liu, Bin Zhang, Hong Zhang, Yue Leng, Mingliang Guo, Xianmeng Wang, Wu Chen, Zhipeng Zhang, Hongge Qian, Yan Cui, Hongshuang Jiang, Ying Chen, Qili Fei, Blake C. Meyers, Wanqi Liang*, Qian Qian*, Lianguang Shang*
The MRE11-ATM-SOG1 DNA damage signaling pathway confers rice immunity to Xanthomonas oryzae
Zhan Xu#*, Mingnan Qu#, Chuanlin Shi#, Hong Zhang, Wu Chen, Hongge Qian, Zhipeng Zhang , Jiehua Qiu , Qian Qian*, Lianguang Shang*
Identification of natural allelic variation in TTL1 controlling thermotolerance and grain size by a rice super pan-genome
Yarong Lin#, Yiwang Zhu#, Yuchao Cui#, Hongge Qian#, Qiaoling Yuan#, Rui Chen, Yan Lin, Jianmin Chen, Xishi Zhou, Chuanlin Shi, Huiying He, Taijiao Hu, Chenbo Gu, XiaomanYu, Xiying Zhu, Yuexing Wang, Qian Qian, Cuijun Zhang*, Feng Wang*, Lianguang Shang*
A rice variation map derived from 10548 rice accessions reveals the importance of rare variants
Tianyi Wang#, Wenchuang He#, Xiaoxia Li#, Chao Zhang#, Huiying He, Qiaoling Yuan, Bin Zhang, Hong Zhang, Yue Leng, Hua Wei, Qiang Xu, Chuanlin Shi, Xiangpei Liu, Mingliang Guo, Xianmeng Wang, Wu Chen, Zhipeng Zhang, Longbo Yang, Yang Lv, Hongge Qian, Bintao Zhang, Xiaoman Yu, Congcong Liu, Xinglan Cao, Yan Cui, Qianqian Zhang, Xiaofan Dai, Longbiao Guo, Yuexing Wang, Yongfeng Zhou, Jue Ruan, Qian Qian*, Lianguang Shang*
A complete assembly of the rice Nipponbare reference genome
Lianguang Shang#*, Wenchuang He#, Tianyi Wang#, Yingxue Yang#, Qiang Xu#, Xianjia Zhao#, Longbo Yang, Hong Zhang, Xiaoxia Li, Yang Lv, Wu Chen, Shuo Cao, Xianmeng Wang, Bin Zhang, Xiangpei Liu, Xiaoman Yu, Huiying He, Hua Wei, Yue Leng, Chuanlin Shi, Mingliang Guo, Zhipeng Zhang, Bintao Zhang, Qiaoling Yuan, Hongge Qian, Xinglan Cao, Yan Cui, Qianqian Zhang, Xiaofan Dai, Congcong Liu, Longbiao Guo, Yongfeng Zhou, Xiaoming Zheng, Jue Ruan, Zhukuan Cheng, Weihua Pan*, Qian Qian*
2022
A transcriptional regulator that boosts grain yields and shortens the growth duration of rice
Shaobo Wei#, Xia Li#, Zefu Lu, Hui Zhang, Xiangyuan Ye, Yujie Zhou, Jing Li, Yanyan Yan, Hongcui Pei, Fengying Duan, Danying Wang, Song Chen, Peng Wang, Chao Zhang, Lianguang Shang, Yue Zhou, Peng Yan, Ming Zhao, Jirong Huang, Ralph Bock, Qian Qian, Wenbin Zhou*
Chromosome-level genome assembly of Zizania latifolia provides insights into its seed shattering and phytocassane biosynthesis
Ning Yan#*, Ting Yang#, Xiu-Ting Yu#, Lianguang Shang#, Deping Guo, Yu Zhang, Lin Meng, Qianqian Qi, Yali Li, Yongmei Du, Xinmin Liu, Xiaolong Yuan, Peng Qin, Jie Qiu, Qian Qian*, Zhongfeng Zhang*
Twenty years of plant genome sequencing: achievements and challenges
Yanqing Sun#, Lianguang Shang#, QianHao Zhu, Longjiang Fan*, Longbiao Guo*
A super pan-genomic landscape of rice
Lianguang Shang#*, Xiaoxia Li#, Huiying He#, Qiaoling Yuan#, Yanni Song#, Zhaoran Wei#, Hai Lin#, Min Hu#, Fengli Zhao#, Chao Zhang, Yuhua Li, Hongsheng Gao, Tianyi Wang, Xiangpei Liu, Hong Zhang, Ya Zhang, Shuaimin Cao, Xiaoman Yu, Bintao Zhang, Yong Zhang, Yiqing Tan, Mao Qin, Cheng Ai, Yingxue Yang, Bin Zhang, Zhiqiang Hu, Hongru Wang, Yang Lv, Yuexing Wang, Jie Ma, Quan Wang, Hongwei Lu, Zhe Wu, Shanlin Liu, Zongyi Sun, Hongliang Zhang, Longbiao Guo, Zichao Li, Yongfeng Zhou, Jiayang Li, Zuofeng Zhu*, Guosheng Xiong*, Jue Ruan*, Qian Qian*
2021
OsbHLH98 regulates leaf angle in rice through transcriptional repression of OsBUL1
Jiangfan Guo#, Wei Li#, Lianguang Shang, Yuguang Wang, Peng Yan, Youhuang Bai, Xiaowen Da, kai Wang, Qian Qian, Ruirui Jiang, Chuanzao Mao*, Xiaorong Mo*
Loci and natural alleles for cadmium-mediated growth responses revealed by a genome wide association study and transcriptome analysis in rice
Jianping Yu#, Chaolei Liu#, Hai Lin#, Bin Zhang, Xiaoxia Li, Qiaoling Yuan, Tianjiao Liu, Huiying He, Zhaoran Wei, Shilin Ding, Chao Zhang, Hongsheng Gao, Longbiao Guo, Quan Wang, Qian Qian*, Lianguang Shang*
Linkage analysis, GWAS, transcriptome analysis to identify candidate genes for rice seedlings in response to high temperature stress
Zhaoran Wei#, Qiaoling Yuan#, Hai Lin#, Xiaoxia Li, Chao Zhang, Hongsheng Gao, Bin Zhang, Huiying He, Tianjiao Liu, Zhang Jie, Xu Gao, Shandang Shi, Bo Wang, Zhenyu Gao, Lingrang Kong, Qian Qian*, Lianguang Shang*
Loci and natural alleles for low-nitrogen-induced growth response revealed by GWAS analysis in rice (Oryza sativa L.)
Yang Lv#, Jie Ma#, Yueying Wang#, Quan Wang, Xueli Lu, Haitao Hu, Qian Qian, Longbiao Guo*, and Lianguang Shang*
A Novel miR167a-ARF6-AUX3 Pathway Regulates Grain Length and Weight in Rice
Jiyue Qiao#, Hongzhen Jiang#, Yuqing Lin#, Lianguang Shang#, Mei Wang, Dongming Li, Xiangdong Fu, Markus Geisler, Yanhua Qi*, Zhenyu Gao*, Qian Qian*
The SEEDLING BIOMASS 1 allele from indica rice enhances yield performance under low-nitrogen environments
Jing Xu#, Lianguang Shang#, Jiajia Wang#, Minmin Chen, Xue Fu, Huiying He, Zian Wang, Dali Zeng, Li Zhu, Jiang Hu, Chao Zhang, Guang Chen, Zhenyu Gao, Weiwei Zou, Deyong Ren, Guojun Dong, Lan Shen, Qiang Zhang, Longbiao Guo, Qian Qian*, and Guangheng Zhang*
2020
Loci and alleles for submergence responses revealed by GWAS and transcriptional analysis in rice
Hongsheng Gao#, Chao Zhang#, Huiying He#, Tianjiao Liu, Bin Zhang, Hai Lin, Xiaoxia Li, Zhaoran Wei, Qiaoling Yuan, Quan Wang, Chunyan Yu*, Lianguang Shang*
OsSLC1 encodes a pentatricopeptide repeat protein essential for early chloroplast development and seedling survival
Jun Lv#, Lianguang Shang#, Yun Chen#, Yao Han, Xiaoyan Yang, Shuzhang Xie, Wenqin Bai, Mingyu Hu, Hong Wu, Kairong Lei, Yanan Yang, Shengzhen Ge, Hai Phuong Trinh, Yi Zhang, Longbiao Guo*, Zhongwei Wang
A Method for Effectively Overcoming Tight Functional Linkage Between Genes in Rice by CRISPR/Cas9 System
Sanfeng Li#, Lan Shen#, Ping Hu, Xianmei Wu, Qiaoling Yuan, Yuchun Rao, Qian Qian, Kejian Wang, Xudong Zhu, Lianguang Shang*, Yuexing Wang*
Natural variation in the promoter of TGW2 determines grain width and weight in rice
Banpu Ruan#, Lianguang Shang#, Bin Zhang, Jiang Hu, Yuexing Wang, Anpeng Zhang, Chaolei Liu, Youlin Peng, Li Zhu, Deyong Ren, Guojun Dong, Guangheng Zhang, Dali Zeng, Longbiao Guo, Zhenyu Gao* and Qian Qian*
A strigolactones biosynthesis gene contributed to the Green Revolution in rice
Yuexing Wang#, Lianguang Shang#, Hong Yu#, Longjun Zeng#, Jiang Hu, Shen Ni, Yuchun Rao, Sanfeng Li, Jinfang Chu, Xiangbing Meng, Lei Wang, Ping Hu, Shujing Kang, Minghao Qu, Hai Lin, Xingming Hu, Hongqi Chen, Bing Wang, Zhenyu Gao, Dali Zeng, Xudong Zhu, Guosheng Xiong*, Jiayang Li*, Qian Qian*
2019
The indica nitrate reductase gene OsNR2 allele enhances rice yield potential and nitrogen use efficiency
Zhenyu Gao#, Yufeng Wang#, Guang Chen#, Anpeng Zhang, Shenglong Yang, Lianguang Shang, Danying Wang, Banpu Ruan, Chaolei Liu, Hongzhen Jiang, Guojun Dong, Li Zhu, Jiang Hu, Guangheng Zhang, Dali Zeng, Longbiao Guo, Guohua Xu, Sheng Teng, Nicholas P Harberd*, Qian Qian*
Genome-wide association analysis and allelic mining of grain.shape related traits in rice
Yang Lv#, Yueying Wang#, Jahan Noushin, Haitao Hu, Ping Chen, Lianguang Shang, Haiyan Lin, Guojun Dong, Jiang Hu, Li Zhu, Qian Qian, Yu Zhang*, Longbiao Guo*
Natural variation in the promoter of OsHMA3 contributes to differential grain cadmium accumulation between Indica and Japonica rice
Chaolei Liu#, Zhenyu Gao#, Lianguang Shang#, Changhong Yang, Banpu Ruan, Dali Zeng, Longbiao Guo, Fangjie Zhao, Chaofeng Huang*, Qian Qian*
Development of three sets of high-throughput genotyped rice chromosome segment substitution lines and QTL mapping for eleven traits
Bin Zhang#, Lianguang Shang#, Banpu Ruan, Anpeng Zhang, Shenglong Yang, Hongzhen Jiang, Chaolei Liu, Kai Hong, Hai Lin, Zhenyu Gao, Jiang Hu, Dali Zeng, Longbiao Guo, Qian Qian*
2018
Xiaowei, a new rice germplasm for large-scale indoor research
Shikai Hu, Xingming Hu, Jiang Hu, Lianguang Shang, Guojun Dong, Dali Zeng, Longbiao Guo, Qian Qian*