李家洋

 

 

Li X, Lei C, Song Q, Bai L, Cheng B, Qin K, Li X, Ma B, Wang B, Zhou W, Chen X and Li J. (2023) Chemoproteomic profiling of O-GlcNAcylated proteins and identification of O-GlcNAc transferases in rice. Plant Biotechnol J. doi: 10.1111/pbi.13991.

 

Li X, Yan Z, Zhang M, Wang J, Xin P, Cheng S, Kou L, Zhang X, Wu S, Chu J, Yi C, Ye K, Wang B, and Li J. (2023). SnoRNP is essential for thermospermine-mediated development in Arabidopsis thaliana. Sci China Life Sci. 66, 2-11.

 

Song X, Meng X, Guo H, Cheng Q, Jing Y, Chen M, Liu G, Wang B, Wang Y, Li J, and Yu H. (2022). Targeting a gene regulatory element enhances rice grain yield by decoupling panicle number and size. Nat Biotechnol. 40: 1403-1411.

 

Liu H, Liu S, Yu H, Huang X, Wang Y, Jiang L, Meng X, Liu G, Chen M, Jing Y, Yu F, Wang B, and Li J. (2022). An engineered platform for reconstituting functional multisubunit SCF E3 ligase in vitro. Mol Plant. 15: 1285-1299.

 

Jia M, Meng X, Song X, Zhang D, Kou L, Zhang J, Jing Y, Liu G, Liu H, Huang X, Wang Y, Yu H, and Li J. (2022). Chilling-induced phosphorylation of IPA1 by OsSAPK6 activates chilling tolerance responses in rice. Cell Discov. 8: 71.

 

Jia M, Luo N, Meng X, Song X, Jing Y, Kou L, Liu G, Huang X, Wang Y, Li J, Wang B, and Yu H. (2022). OsMPK4 promotes phosphorylation and degradation of IPA1 in response to salt stress to confer salt tolerance in rice. J Genet Genomics. 49: 766-775.

 

Zhang J, Zeng P, Yu H, Meng X, and Li J. (2022). Protocol for genome editing in wild allotetraploid rice Oryza alta. STAR Protoc. 3: 101789.

 

Bi G, Hu M, Fu L, Zhang X, Zuo J, Li J, Yang J, and Zhou J.M. (2022). The cytosolic thiol peroxidase PRXIIB is an intracellular sensor for H₂O₂ that regulates plant immunity through a redox relay. Nat Plants. 8: 1160-1175.

 

Chen L, Sun S, Song C, Zhou J.M, Li J, and Zuo J. (2022). Nitric oxide negatively regulates gibberellin signaling to coordinate growth and salt tolerance in Arabidopsis. J Genet Genomics. 49: 756-765.

 

Zou J, Meng X, Liu Q, Shang M, Wang K, Li J, Yu H, and Wang C. (2022). Improving the efficiency of prime editing with epegRNAs and high-temperature treatment in rice. Sci China Life Sci. 65, 2328–2331.

 

Shang L, Li X, He H, Yuan Q, Song,Y, Wei Zh, Lin H, Hu M, Zhao F, Zhang Ch, Li Y, Gao H, Wang T, Liu X, Zhang H, Zhang Y, Cao Sh, Yu X, Zhang B, Zhang Y, Tan ,Y, Qin Mao, Ai Ch, Yang Y, Zhang B, Hu Zh, Wang H, Lv Y, Wang Y, Ma J, Wang Q, Lu H, Wu Zh, Liu Sh, Sun Z, Zhang H, Guo L, Li Z, Zhou Y, Li J, Zhu Z, Xiong G, Ruan J, and Qian,Q. (2022). A super pan-genomic landscape of rice. Cell Res. 32: 878-896.

 

Lin T, Xu X, Du H, Fan X, Chen Q, Hai C, Zhou Z, Su X, Kou L, Gao Q, Deng L, Jiang J, You H, Ma Y, Cheng Z, Wang G, Liang C, Zhang G, Yu H, and Li J. (2022). Extensive sequence divergence between the reference genomes of Taraxacum kok-saghyz and Taraxacum mongolicum. Sci China Life Sci 65, 515-528.

 

Yu H, Lin T, Meng X, Du H, Zhang J, Liu G, Chen M, Jing Y, Kou L, Li X, Gao Q, Liang Y, Liu X, Fan Z, Liang Y, Cheng Z, Chen M, Tian Z, Wang Y, Chu C, Zuo J, Wan J, Qian Q, Han B, Zuccolo A, Wing R A, Gao C, Liang C, and Li J. (2021). A route to de novo domestication of wild allotetraploid rice. Cell. 184: 1156-1170.

 

Luo L, He Y, Li J, and Yu H. (2021). Immunopurification of Mitochondria from Arabidopsis. Curr Protoc 1, e34.

 

Wu X, Liang Y, Gao H, Wang J, Zhao Y, Hua L, Yuan Y, Wang A, Zhang X, Liu J, Zhou J, Meng X, Zhang D, Lin S, Huang X, Han B, Li J, and Wang Y. (2021). Enhancing rice grain production by manipulating the naturally evolved cis-regulatory element-containing inverted repeat sequence of OsREM20. Mol Plant 14: 997-1011.

 

Lin Q, Jin S, Zong Y, Yu H, Zhu Z, Liu G, Kou L, Wang Y, Qiu J, Li J, and Gao C. (2021). High-efficiency prime editing with optimized, paired pegRNAs in plants. Nat Biotechnol 39: 923-927.

 

Liu Q, Jiao X, Meng X, Wang C, Xu C, Tian Z, Xie C, Li G, Li J, Yu H, and Wang K. (2021). FED: a web tool for foreign element detection of genome-edited organism. Sci China Life Sci 64, 167-170.

 

Ren J, Meng X, Hu F, Liu Q, Cao Y, Li H, Yan C, Li J, Wang K., Yu H, and Wang C. (2021). Expanding the scope of genome editing with SpG and SpRY variants in rice. Sci China Life Sci 64: 1784-1787.

 

Zhang R, Chen S, Meng X, Chai Z, Wang D, Yuan Y, Chen K, Jiang L, Li J, and Gao C. (2021). Generating broad-spectrum tolerance to ALS-inhibiting herbicides in rice by base editing. Sci China Life Sci 64: 1624-1633.

 

Wu S, Wang Y, Wang J, Li X, Li J, and Ye K. (2021). Profiling of RNA ribose methylation in Arabidopsis thaliana. Nucleic Acids Res 49: 4104-4119.

 

Huang L, Wang W, Zhang N, Cai Y, Liang Y, Meng X, Yuan Y, Li J, Wu D, and Wang Y. (2021). LAZY2 controls rice tiller angle through regulating starch biosynthesis in gravity-sensing cells. New Phytol 231: 1073-1087.

 

Wang L, Wang B, Yu H, Guo H, Lin T, Kou L, Wang A, Shao N, Ma H, Xiong G, Li X, Yang J, Chu J, and Li J. (2020). Transcriptional regulation of strigolactone signalling in Arabidopsis. Nature. 583, 277-281.

 

Li C, Zhang R, Meng X, Chen S, Zong Y, Lu C, Qiu J, Chen Y, Li J, and Gao C. (2020). Targeted, random mutagenesis of plant genes with dual cytosine and adenine base editors. Nat Biotechnol. 38, 875-882.

 

Liu X, Hu Q, Yan J, Sun K, Liang Y, Jia M, Meng X, Fang S, Wang Y, Jing Y, Liu G, Wu D, Chu C, Smith S M, Chu J, Wang Y, Li J, and Wang B. (2020). zeta-Carotene Isomerase Suppresses Tillering in Rice through the Coordinated Biosynthesis of Strigolactone and Abscisic Acid. Mol Plant 13, 1784-1801.

 

Wang L, Xu Q, Yu H, Ma H, Li X, Yang J, Chu J, Xie Q, Wang Y, Smith S M, Li J, Xiong G, and Wang B. (2020). Strigolactone and Karrikin Signaling Pathways Elicit Ubiquitination and Proteolysis of SMXL2 to Regulate Hypocotyl Elongation in Arabidopsis. Plant Cell 32, 2251-2270.

 

Chen L, Wu R, Feng J, Feng T, Wang C, Hu J, Zhan N, Li Y, Ma X, Ren B, Zhang J, Song C, Li J, Zhou J, and Zuo J. (2020). Transnitrosylation Mediated by the Non-canonical Catalase ROG1 Regulates Nitric Oxide Signaling in Plants. Dev Cell 53, 444-457.

 

Li R, Sun S, Wang H, Wang K, Yu H, Zhou Z, Xin P, Chu J, Zhao T, Wang H, Li J, and Cui X. (2020). FIS1 encodes a GA2-oxidase that regulates fruit firmness in tomato. Nat Commun 11, 5844.

 

Wang F, Han T, Song Q, Ye W, Song X, Chu J, Li J, and Chen Z. (2020). The Rice Circadian Clock Regulates Tiller Growth and Panicle Development Through Strigolactone Signaling and Sugar Sensing. Plant Cell 32, 3124-3138.

 

Wang W, Yang J, Zhang J, Liu Y, Tian C, Qu B, Gao C, Xin P, Cheng S, Zhang W, Miao P, Li L, Zhang X, Chu J, Zuo J, Li J, Bai Y, Lei X, and Zhou J. (2020). An Arabidopsis Secondary Metabolite Directly Targets Expression of the Bacterial Type III Secretion System to Inhibit Bacterial Virulence. Cell Host Microbe 27, 601-613.

 

Zhao M, Tang S, Zhang H, He M, Liu J, Zhi H, Sui Y, Liu X, Jia G, Zhao Z, Yan J, Zhang B, Zhou Y, Chu J, Wang X, Zhao B, Tang W, Li J, Wu C, Liu X, and Diao X. (2020). DROOPY LEAF1 controls leaf architecture by orchestrating early brassinosteroid signaling. Proc Natl Acad Sci USA 117, 21766-21774.

 

Zheng J, Hong K, Zeng L, Wang L, Kang S, Qu M, Dai J, Zou L, Zhu L, Tang Z, Meng X, Wang B, Hu J, Zeng D, Zhao Y, Cui P, Wang Q, Qian Q, Wang Y, Li J, and Xiong G. (2020). Karrikin Signaling Acts Parallel to and Additively with Strigolactone Signaling to Regulate Rice Mesocotyl Elongation in Darkness. Plant Cell 32, 2780-2805.

 

Hu X, Meng X, Li J, Wang K, and Yu H. (2020). Improving the efficiency of the CRISPR-Cas12a system with tRNA-crRNA arrays. Crop J 8, 403-407.

 

Luo L, He Y, Xu Q, Lyu W, Yan J, Xin P, Zhang D, Chu J, Li J, and Yu H. (2020). Rapid and specific isolation of intact mitochondria from Arabidopsis leaves. J Genet Genomics 47, 65-68.

 

Wang C, Yu H, Huang J, Wang W, Faruquee M, Zhang F, Zhao X, Fu B, Chen K, Zhang H, Tai S, Wei C, McNally K, Alexandrov N, Gao X, Li J, Li Z, Xu J, and Zheng T. (2020). Towards a deeper haplotype mining of complex traits in rice with RFGB v2.0. Plant Biotechnol J 18, 14-16.

 

Wang Y, Shang L, Yu H, Zeng L, Hu J, Ni S, Rao Y, Li S, Chu J, Meng X, Wang L, Hu P, Yan J, Kang S, Qu M, Lin H, Wang T, Wang Q, Hu X, Chen H, Wang B, Gao Z, Guo L, Zeng D, Zhu X, Xiong G, Li J, and Qian Q. (2020). A strigolactone biosynthesis gene contributed to the green revolution in rice. Mol Plant 13, 923-932.

 

Xu L, Yuan K, Yuan M, Meng X, Chen M, Wu J, Li J, and Qi Y. (2020). Regulation of rice tillering by RNA-directed DNA methylation at miniature inverted-repeat transposable elements. Mol Plant 13, 851-863.

 

Xu Y, Meng X, Wang J, Qin B, Wang K, Li J, Wang C, and Yu H. (2020). ScCas9 recognizes NNG protospacer adjacent motif in genome editing of rice. Sci China Life Sci 63, 450-452.

 

Duan J, Yu H, Yuan K, Liao Z, Meng X, Jing Y, Liu G, Chu J, and Li J (2019). Strigolactone promotes cytokinin degradation through transcriptional activation of CYTOKININ OXIDASE/DEHYDROGENASE 9 in rice. Proc Natl Acad Sci USA 116: 14319-14324.

 

Liao Z, Yu H, Duan J, Yuan K, Yu C, Meng X, Kou L, Chen M, Jing Y, Liu G, Smith SM, and Li J (2019). SLR1 inhibits MOC1 degradation to coordinate tiller number and plant height in rice. Nat Commun 10: 2738.

 

Shao G, Lu Z, Xiong J, Wang B, Jing Y, Meng X, Liu G, Ma H, Liang Y, Chen F, Wang Y, Li J, and Yu H (2019). Tiller bud formation regulators MOC1 and MOC3 cooperatively promote tiller bud outgrowth by activating FON1 expression in rice. Mol Plant 12: 1090-1102.

 

Li Z, Liang Y, Yuan Y, Wang L, Meng X, Xiong G, Zhou J, Cai Y, Han N, Hua L, Liu G, Li J, and Wang Y (2019). OsBRXL4 regulates shoot gravitropism and rice tiller angle through affecting LAZY1 nuclear localization. Mol Plant 12: 1143-1156.

 

Luo L, He Y, Zhao Y, Xu Q, Wu J, Ma H, Guo H, Bai L, Zuo J, Zhou JM, Yu H, and Li J (2019). Regulation of mitochondrial NAD pool via NAD⁺ transporter 2 is essential for matrix NADH homeostasis and ROS production in Arabidopsis. Sci China Life Sci 62: 991-1002.

 

Zhang R, Liu J, Chai Z, Chen S, Bai Y, Zong Y, Chen K, Li J, Jiang L, and Gao C (2019). Generation of herbicide tolerance traits and a new selectable marker in wheat using base editing. Nat Plants 5: 480-485.

 

Wang J, Meng X, Hu X, Sun T, Li J, Wang K, and Yu H (2019). xCas9 expands the scope of genome editing with reduced efficiency in rice. Plant Biotechnol J 17: 709-711.

 

Wang J, Zhou L, Shi H, Chern M, Yu H, Yi H, He M, Yin J, Zhu X, Li Y, Li W, Liu J, Wang J, Chen X, Qing H, Wang Y, Liu G, Wang W, Li P, Wu X, Zhu L, Zhou J, Ronald P, Li S, Li J, and Chen X (2018). A single transcription factor promotes both yield and immunity in rice, Science 361: 1026-1028.

 

Wang W, Mauleon R, Hu Z, Chebotarov D, Tai S, Wu Z, Li M, Zheng T, Fuentes R, Zhang F, Mansueto L, Copettie D, Sanciangco M, Palis K, Xu J, Sun C, Fu B, Zhang H, Gao Y, Zhao X, Shen F, Cui X, Yu H, Li Z, Chen M, Detras J, Zhou Y, Zhang X, Zhao Y, Kudrna D, Wang C, Li R, Jia B, Lu J, He X, Dong Z, Xu J, Li Y, Wang M, Shi J, Li J, Zhang D, Lee S, Hu W, Poliakov A, Dubchak I, Ulat V, Borja F, Mendoza J, Ali J, Li J, Gao Q, Niu Y, Yue Z, Naredo M, Talag J, Wang X, Li J, Fang X, Yin Y, Glaszmann J, Zhang J, Li J, Hamilton R, Wing R, Ruan J, Zhang G, Wei C, Alexandrov N, McNally K, Li Z, Leung H (2018). Genomic variation in 3,010 diverse accessions of Asian cultivated rice, Nature 557, 43–49.

 

Zhao Y, Luo L, Xu J, Xin P, Guo H, Wu J, Bai L, Wang G, Chu J, Zuo J, Yu H, Huang X, and Li J (2018). Malate transported from chloroplast to mitochondrion triggers production of ROS and PCD in Arabidopsis thaliana, Cell Res 28, 448–461.

 

Wang W, Hu B, Yuan D, Liu Y, Che R, Hu Y, Ou S, Liu Y, Zhang Z, Wang H, Li H, Jiang Z, Zhang Z, Gao X, Qiu Y, Meng X, Liu Y, Bai Y, Liang Y, Wang Y, Zhang L, Li L, Sodmergen, Jing H, Li J, Chu C (2018). Expression of the Nitrate Transporter Gene OsNRT1.1A/OsNPF6.3 Confers High Yield and Early Maturation in Rice, Plant Cell 30, 638–651.

 

Wang Q, Nian J, Xie X, Yu H, Zhang J, Bai J, Dong G, Hu J, Bo B, Chen L, Xie Q, Feng J, Yang X, Peng J, Chen F, Qian Q, Li J, and Zuo J (2018). Genetic variations in ARE1 mediate grain yield by modulating nitrogen utilization in rice, Nat Commun 9, 735.

 

Yao R, Wang L, Li Y, Chen L, Li S, Du X, Wang B, Yan J, Li J and Xie D (2018). Rice DWARF14 acts as an unconventional hormone receptor for strigolactones. J Exp Bot 69, 2355-2365.

 

Meng X, Hu X, Liu Q, Song X, Gao C, Li J, and Wang K (2018). Robust genome editing of CRISPR-Cas9 at NAG PAMs in rice. Sci China Life Sci 61, 122-125.

 

Lin T, Xu X, Ruan J, Liu S, Wu S, Shao X, Wang X, Gan L, Qin B, Yang Y, Cheng Z, Yang S, Zhang Z, Xiong G, Huang S, Yu H, Li J (2018). Genome analysis of Taraxacum kok-saghyz Rodin provides new insights into rubber biosynthesis, Natl Sci Rev 5, 78-87.

 

Song X, Lu Z, Yu H, Shao G, Xiong J, Meng X, Jing Y, Liu G, Xiong G, Duan J, Yao XF, Liu CM, Li H, Wang Y, and Li J (2017). IPA1 functions as a downstream transcription factor repressed by D53 in strigolactone signaling in rice. Cell Res 27, 1128-1141.

 

Meng X, Yu H, Zhang Y, Zhuang F, Song X, Gao S, Gao C, and Li J (2017). Construction of a Genome-Wide Mutant Library in Rice Using CRISPR/Cas9. Mol Plant 10, 1238-1241.

 

Ma H, Duan J, Ke J, He Y, Gu X, Xu TH, Yu H, Wang Y, Brunzelle JS, Jiang Y, Rothbart SB, Xu HE, Li J, and Melcher K (2017). A D53 repression motif induces oligomerization of TOPLESS corepressors and promotes assembly of a corepressor-nucleosome complex. Sci Adv 3, e1601217.

 

Hu X, Meng X, Liu Q, Li J, and Wang K (2017). Increasing the efficiency of CRISPR-Cas9-VQR precise genome editing in rice. Plant Biotechnol J 3, e1601217.

 

Zhang L, Yu H, Ma B, Liu G, Wang J, Wang J, Gao R, Li J, Liu J, Xu J, Zhang Y, Li Q, Huang H, Xu J, Li J, Qian Q, Han B, He Z and Li J (2017) A natural tandem array alleviates epigenetic repression of IPA1 and leads to superior yielding in rice. Nat Commun 8, 14789.

 

Zeng D, Tian Z, Rao Y, Dong G, Yang Y, Huang L, Leng Y, Xu J, Sun C, Zhang G, Hu J, Zhu L, Gao Z, Hu X, Guo L, Xiong G, Wang Y, Li J, and Qian Q (2017) Rational design of high-yield and superior-quality rice. Nat Plants 3, 17031.

 

Wang J, Yu H, Xiong G, Lu Z, Jiao J, Meng X, Liu G, Chen X, Wang Y and Li J (2017) Tissue-specific Ubiquitination by IPA1 INTERACTING PROTEIN 1 Modulates IPA1 Protein Levels to Regulate Plant Architecture in Rice. Plant Cell 29, 697-707.

 

Zhou H, Wang L, Liu G, Meng X, Jing Y, Shu X, Kong X, Sun J, Yu H, Smith SM, Wu D and Li J (2016) Critical roles of soluble starch synthase SSIIIa and granule-bound starch synthase Waxy in synthesizing resistant starch in rice. Proc Natl Acad Sci USA 113, 12844–12849.

 

Jia W, Li B, Li S, Liang Y, Wu X, Ma M, Wang J, Gao J, Cai Y, Zhang Y, Wang Y, Li J, and Wang Y (2016) Mitogen-Activated Protein Kinase Cascade MKK7-MPK6 Plays an Important Role in Plant Development and Regulates Shoot Branching by Phosphorylating PIN1 in Arabidopsis. PLOS BIOL 14, e1002550.

 

Yao R, Ming Z, Yan L, Li S, Wang F, Ma S, Yu C, Yang M, Chen L, Chen L, Li Y, Yan C, Miao D, Sun Z, Yan J, Sun Y, Wang L, Chu J, Fan S, He W, Deng H, Nan F, Li J, Rao Z, Lou Z and Xie D (2016) Allosteric activation of the non-canonical hormone receptor DWARF14 by strigolactone. Nature 536, 469-473.

 

Xie T, Chen D, Wu J, Huang X, Wang Y, Tang K, Li J, Sun M, and Peng X. (2016) Growing Slowly 1 locus encodes a PLS-type PPR protein required for RNA editing and plant development in Arabidopsis. J Exp Bot 67, 5687-5698.

 

Li J, Meng X, Zong Y, Chen K, Zhang H, Liu J, Li J and Gao C (2016) Gene replacement and insertions in rice by intron targeting using CRISPR/Cas9. Nat Plants 2. 16139.

 

Huang S, Weigel D, Beachy RN, and Li J. (2016) A proposed regulatory framework for genome-edited crops. Nat Genet 48, 109-111.

 

Ke J, Ma H, Gu X, Thelen A, Brunzelle J, Li J, Xu H, and Melcher K. (2015). Structural basis for recognition of diverse transcriptional repressors by the TOPLESS family of corepressors. Sci Adv 1, e1500107.

 

Wang L, Wang B, Jiang L, Liu X, Li X, Lu Z, Meng X, Wang Y, Smith S, and Li J. (2015). Strigolactone Signaling in Arabidopsis Regulates Shoot Development by Targeting D53-Like SMXL Repressor Proteins for Ubiquitination and Degradation. Plant Cell 27, 3128-3142.

 

Hu J, Wang Y, Fang Y, Zeng,L, Xu J, Yu H, Shi Z, Pan J, Zhang D, Kang S, Zhu L, Dong G, Guo L, Zeng D, Zhang G, Xie L, Xiong G, Li J, and Qian Q. (2015). A Rare Allele of GS2 Enhances Grain Size and Grain Yield in Rice. Mol Plant 8, 1455-1465.

 

Liu L, Tong H, Xiao Y, Che R, Xu F, Hu B, Liang C, Chu J, Li J, and Chu C. (2015). Activation of Big Grain1 significantly improves grain size by regulating auxin transport in rice. Proc Natl Acad Sci USA 112, 11102-11107.

 

Zhao L, Zhou X, Yi W, Wu Z, Liu Y, Kang Y, Hou L, de Waal P, Li S, Jiang Y, Scaffidi A, Flematti G, Smith S, Lam V, Griffin P, Wang Y, Li J, Melcher K, and Xu H (2015). Destabilization of strigolactone receptor DWARF14 by binding of ligand and E3-ligase signaling effector DWARF3. Cell Res 25, 1219-1236.

 

Wang Y, Xiong G, Hu J, Jiang L, Yu H, Xu J, Fang Y, Zeng L, Xu E, Xu J, Ye W, Meng X, Liu R, Chen H, Jing Y, Wang Y, Zhu X, Li J, and Qian Q. (2015) Copy number variation at the GL7 locus contributes to grain size diversity in rice. Nat Genet 47, 944-948.

 

Yu H, and Li J (2015). Plant and animal organelles in cell death. Oncotarget 6, 13852-13853.

 

Jing H, Yang X, Zhang J, Liu X, Zheng H, Dong G, Nian J, Feng J, Xia B, Qian Q, Li J, and Zuo, J (2015). Peptidyl-prolyl isomerization targets rice Aux/IAAs for proteasomal degradation during auxin signalling. Nat Commun 6, 7395.

 

Wu J, Sun Y, Zhao Z, Zhang J, Luo L, Li M, Wang J, Yu H, Liu G, Yang L, Xiong G, Zhou J, Zuo J, Wang Y, and Li J (2015) Deficient plastidic fatty acid synthesis triggers cell death by modulating mitochondrial reactive oxygen species. Cell Res 25, 621-633.

 

Wang B, Chu J, Yu T, Xu Q, Sun X, Yuan J, Xiong G, Wang G, Wang Y and Li J (2015) Tryptophan-independent auxin biosynthesis contributes to early embryogenesis in Arabidopsis. Proc Natl Acad Sci USA 112, 4821-4826.

 

Lu Z, Shao G, Xiong J, Jiao Y, Wang J, Liu G, Meng X, Liang Y, Xiong G, Wang Y, and Li J (2015) MONOCULM 3, ortholog of WUSCHEL in rice, is required for tiller bud formation. J Genet Genomics 42. 71-78.

 

Huang X, Yang S, Gong J, Zhao Y, Feng Q, Gong Hao, Li W, Zhan Q, Cheng B, Xia J, Chen N, Hao Z, Liu K, Zhu C, Huang T, Zhao Q, Zhang L, Fan D, Zhou C, Lu Y, Weng Q, Wang Z, Li J and Han B (2015) Genomic analysis of hybrid rice varieties reveals numerous superior alleles that contribute to heterosis. Nat Commun 6, 6258.

 

Sang D, Chen D, Liu G, Liang Y, Huang L, Meng X, Chu J, Sun X, Dong G, Yuan Y, Qian Q, Li J, and Wang Y. (2014). Strigolactones regulate rice tiller angle by attenuating shoot gravitropism through inhibiting auxin biosynthesis. Proc Natl Acad Sci USA 111, 11199-11204.

 

Cardoso C, Zhang Y, Jamil M, Hepworth J, Charnikhova T, Dimkpa S, Meharg C, Wright M, Liu J, Meng X, Wang Y, Li J, McCouch S, Leyser O, Price A, Bouwmeester H and Ruyter-Spira C (2014) Natural variation of rice strigolactone biosynthesis is associated with the deletion of two MAX1 orthologs. Proc Natl Acad Sci USA 111: 2379–2384.

 

Jiang L, Liu X, Xiong G, Liu H, Chen F, Wang L, Meng X, Liu G, Yu H, Yuan Y, Yi W, Zhao L, Ma H, He Y, Wu Z, Melcher K, Qian Q, Xu H, Wang Y and Li J (2013) DWARF 53 acts as a repressor of strigolactone signaling in rice. Nature 504: 401-405.

 

Lu Z, Yu H, Xiong G, Wang J, Jiao Y, Guifu Liu G, Jing Y, Meng X, Hu X, Qian Q, Fu X, Wang Y and Li J (2013) Genome-wide binding analysis of the transcription activator IPA1 reveals a complex network regulating rice plant architecture. Plant Cell 25: 3743-3759.

 

Zhu Y, Guo G, Zhang Z, Liu C, Hu Q, Lam H, Cheng H, Xue Y, Li J and Li N (2013) Stable isotope metabolic labelingbased quantitative phosphorproteomic analysis of Arabidopsis mutants reveals ethyleneregulated time-dependent phosphorproteins and putative substrates of Constitutive Triple Response 1 kinase. Mol Cell Proteomics 12, 3559-3582.

 

Jia G, Huang X, Zhi H, Zhao Y, Zhao Q, Li W, Chai Y, Yang L, Liu K, Lu H, Zhu C, Lu Y, Zhou C, Fan D, Weng Q, Guo Y, Huang T, Zhang L, Lu T, Feng Q, Hao H, Liu H, Lu P, Zhang N, Li Y, Guo E, Wang S, Wang S, Liu J, Zhang W, Chen G, Zhang B, Li W, Wang X, Li H, Zhao B, Li J, Diao X and Han B (2013) A haplotype map of genomic variations and genome-wide association studies of agronomic traits in foxtail millet (Setaria italica). Nat Genet 45: 957-961.

 

Gao Z, Zhao S, He W, Guo L, Wang J, Peng Y, Guo X, Zhang X, Rao Y, Zhang C, Dong G, Zheng F, Lu C, Hu J, Zhou Q, Liu H, Hu X, Xu J, Zeng D, Liu D, Tian P, Gong L, Li Y, Zhang G, Wang J, Tian F, Xue D, Liao Y, Chen M, Li J, Cheng S, Zhang G, Wang J, and Qian Q (2013) Uncovering yield-associated loci in super-hybrid rice by resequencing recombinant inbred lines while improving its parental genome sequences. Proc Natl Acad Sci USA 110: 14492-14497.

 

Liu L, Shang-Guan K, Zhang B, Liu X, Yan M, Lanjun Zhang L, Shi Y, Zhang M, Qian Q, Li J and Zhou Y (2013) Brittle Culm1, a COBRA-Like Protein, Functions in Cellulose Assembly through Binding Cellulose Microfibrils. PLoS Genet 9: e1003704.

 

Zhao L, Zhou X, Wu Z, Yi W, Xu Y, Li S, Xu T, Liu Y, Chen R, Kovach A, Kang Y, Hou L, He Y, Xie C, Song W, Zhong D, Xu Y, Wang Y, Li J, Zhang C, Melcher K and Xu H (2013) Crystal structures of two phytohormone signal-transducing α/β hydrolases: karrikin-signaling KAI2 and strigolactone signaling DWARF14. Cell Res 23:436-439.

 

Chen L, Xiong G, Cui X, Yan Y, Xu T, Qian Q, Xue Y, Li J and Wang Y (2013) OsGRAS19 may be a novel component involved in the brassinosteroid signaling pathway in rice. Mol Plant 6: 988-991.

 

Zhang X, Wang J, Huang J, Lan H, Wang C, Yin C, Wu Y, Tang H, Qian Q, Li J, and Zhang H (2012) Rare allele of OsPPKL1 associated with grain length causes extra-large grain and a significant yield increase in rice. Proc Natl Acad Sci USA 109: 21534-21539.

 

Huang X, Kurata N, Wei X, Wang Z, Wang A, Zhao Q, Zhao Y, Lu H, Li W, Guo Y, Lu Y, Liu K, Zhou C, Fan D, Weng Q, Zhu C, Huang T, Zhang L, Wang Y, Feng L, Furuumi H, Kubo T, Miyabayashi T, Yuan X, Xu Q, Dong G, Zhan Q, Li C, Fujiyama A, Toyoda A, Lu T, Feng Q, Qian Q, Li J and Han B (2012) A map of rice genome variation reveals the origin of cultivated rice and domestication-associated genes. Nature 490: 497-502.

 

Xu C, Wang Y, Yu Y, Duan J, Liao L, Xiong G, Meng X, Liu G, Qian Q and Li J (2012) Degradation of MONOCULM 1 (MOC1) by APC/C^TAD1 regulates rice tillering. Nat Commun DOI: 10.1038/ncomms1743.

 

Huang X, Zhao Y, Wei X, Li C, Wang A, Zhao Q, Li W, Guo Y, Deng L, Zhu C, Fan D, Lu Y, Weng Q, Liu K, Zhou T, Jing Y, Si L, Dong G, Huang T, Lu T, Feng Q, Qian Q, Li J and Han B (2012) Genome-wide association study of flowering time and grain yield traits in a worldwide collection of rice germplasm Nat Genet 44: 32-39.

 

Huang X, Wei X, Sang T, Zhao Q, Feng Q, Zhao Y, Li C, Zhu C, Lu T, Zhang Z, Li M, Fan D, Guo Y, Wang A, Wang L, Deng L, Li W, Lu Y, Weng Q, Liu K, Huang T, Zhou T, Jing Y, Li W, Lin Z, Bucker ES, Qian Q, Zhang Q, Li J and Han B (2010) Genome-wide association studies of 14 agronomic traits in rice landraces. Nat Genet 42: 961-967.

 

Jiao Y, Wang Y, Xue D, Wang J, Yan M, Liu G, Dong G, Zeng D, Lu Z, Zhu X, Qian Q and Li J (2010) Regulation of OsSPL14by OsmiR156 defines ideal plant architecture in rice. Nat Genet 42, 541-544.

 

Cui X, Ge C, Wang R, Wang H, Chen W, Fu Z, Jiang X, Li J, Wang Y (2010) The BUD2 mutation affects plant architecture through altering response to cytokinin and auxin in Arabidopsis. Cell Res 20: 576-586.

 

Melcher K, Ng LM, Zhou X, Soon FF, Xu Y, Suino-Powell KM, Park SY, Weiner JJ, Fujii H, Chinnusamy V, Kovach A, Li J, Wang Y, Li J, Peterson FC, Jensen DR, Yong EL, Volkman BF, Cutler SR, Zhu J, and Xu E (2009). A gate-latch-lock mechanism for hormone signalling by abscisic acid receptors. Nature 462: 602-608.

 

Wang H, Zhu Y, Fujioka S, Asami T, Li J, and Li J (2009). Regulation of Arabidopsis brassinosteroid signaling by atypical basic helix-loop-helix proteins. Plant Cell 21: 3781-3791.

 

Lin H, Wang R, Qian Q, Yan M, Meng X, Fu Z, Yan C, Jiang B, Su Z, Li J, and Wang Y (2009). DWARF27, an iron-containing protein required for the biosynthesis of strigolactones, regulates rice tiller bud outgrowth. Plant Cell 21: 1512-1525.

 

Huang X, Qian Q, Liu Z, Sun H, He S, Luo D, Xia G, Chu C, Li J, and Fu X. (2009) Natural variation at the DEP1 locus enhances grain yield in rice. Nat Genet 41: 494-497.

 

Li S, Qian Q, Fu Z, Zeng D, Meng X, Kyozuka J, Maekawa M, Zhu X, Zhang J, Li J and Wang Y (2009) Short panicle1 encodes a putative PTR transporter and determines rice panicle size. Plant J 58: 592-605.

 

Zhou Y, Li S, Qian Q, Zeng D, Zhang M, Guo L, Liu XL, Zhang B, Deng L, Liu XF, Luo G, Wang X and Li J (2009) BC10, a DUF266-containing and golgi-located type II membrane protein, is required for cell wall biosynthesis in rice (Oryza sativa L.) Plant J 57: 446-462.

 

Tian Z, Qian Q, Liu Q, Yan M, Liu X, Yan C, Liu G, Gao Z, Tang S, Zeng D, Wang Y, Yu J, Gu M and Li J (2009) Allelic diversities in rice starch biosynthesis lead to a diverse array of rice eating and cooking qualities. Proc Natl Acad Sci USA 106: 21760–21765.

 

Yu Y, Tang T, Qian Q, Wang Y, Yan M, Zeng D, Han B, Wu Chung-I, Shi S and Li J (2008) Independent losses of function in a polyphenol oxidase in rice: differentiation in grain discoloration between subspecies and the role of positive selection under domestication. Plant Cell 20: 2946-2959.

 

Li P, Wang Y, Qian Q, Fu Z, Wang M, Zeng D, Li B, Wang X, and Li J ( (2007) LAZY1 controls rice shoot gravitropism through regulating polar auxin transport. Cell Res 17: 402-410.

 

Dai Y, Wang H, Li B, Huang J, Liu X, Zhou Y, Mou Z and Li J (2006) Increased expression of MAPKK7 causes deficiency in polar auxin transport and leads to plant architectural abnormality in Arabidopsis. Plant Cell 18: 308-320.

 

Xiong G, Hu X, Jiao Y, Yu Y, Chu C, Li J, Qian Q and Wang Y (2006) LEAFY HEAD2, which encodes a putative RNA-binding protein, regulates shoot development of rice. Cell Res 16: 267-276.

 

Ge C, Cui X, Wang Y, Hu Y, Fu Z, Zhang D, Cheng Z, and Li J (2006) BUD2, encoding an S-adenosylmethionine decarboxylase, is required for Arabidopsis growth and development. Cell Res 16: 446-456.

 

Hu Y, Wang Y, Liu X, and Li J (2004) Arabidopsis RAV1 is down-regulated by brassinosteroid and may act as a negative regulator during plant development. Cell Res 14: 8-15.

 

Li Y, Qian Q, Zhou Y, Yan M, Sun L, Zhang M, Fu Z, Wang Y, Han B, Pang X, Chen M and Li J (2003) BRITTLE CULM 1, which encodes a COBRA-like protein, affects the mechanical properties of rice plants. Plant Cell 15: 2020-2031.

Li X, Qian Q, Fu Z, Wang Y, Xiong G, Zeng D, Wang X, Liu X, Teng S, Hiroshi F, Yuan M, Luo D, Han B and Li J (2003) Control of tillering in rice. Nature 422: 618-621.

 

Feng Q, Zhang Y, Hao P, Wang S, Fu G, Huang Y, Li Y, Zhu J, Liu Y, Hu X, Jia P, Zhang Y, Zhao Q, Ying K, Yu S, Tang Y, Weng Q, Zhang L, Lu Y, Mu J, Lu Y, Zhang LS, Yu Z, Fan D, Liu X, Lu T, Li C, Wu Y, Sun T, Lei H, Li T, Hu H, Guan J, Wu M, Zhang R, Zhou B, Chen Z, Chen L, Jin Z, Wang R, Yin H, Cai Z, Ren S, Lv G, Gu W, Zhu G, Tu Y, Jia J, Zhang Y, Chen J, Kang H, Chen X, Shao C, Sun Y, Hu Q, Zhang X, Zhang W, Wang L, Ding C, Sheng H, Gu J, Chen S, Ni L, Zhu F, Chen W, Lan L, Lai Y, Cheng Z, Gu M, Jiang J, Li J, Hong G, Xue Y and Han B (2002) Sequence and analysis of rice chromosome 4. Nature 420: 316-320.

 

Mou Z, Wang X, Fu Z, Dai Y, Han C, Ouyang J, Bao F, Hu Y, and Li J (2002) Silencing of phosphoethanolamine N-methyltransferase results in temperature-sensitive male sterility and salt hypersensitivity in Arabidopsis. Plant Cell 14: 2031-2043.

 

Hu Y, Bao F and Li J (2000) The promotive effect of brassinosteroids on cell division involves a distinct cycD3-induction pathway in Arabidopsis. Plant J 24: 693-701.

 

Ouyang J, Shao X and Li J (2000) Indole-3-glycerol phosphate, a branchpoint of indole-3-acetic acid biosynthesis from tryptophan biosynthetic pathway in Arabidopsis thaliana. Plant J 24: 327-333.

 

Mou Z, He Y, Dai Y, Liu X and Li J (2000) Deficiency in fatty acid synthase leads to premature cell death and dramatic alterations in plant morphology. Plant Cell 12: 405-417.

 

Li J and Last RL (1996) The Arabidopsis thaliana trp5 mutant has a feedback-resistant anthranilate synthase and elevated soluble tryptophan. Plant Physiol 110: 51-59.

 

Li J, Zhao J, Rose AB, Schmidt R and Last RL (1995) Arabidopsis phosphoribosyl anthranilate isomerase: molecular genetic analysis of triplicate tryptophan pathway genes. Plant Cell 7: 447-461.

 

Li J, Ou-Lee T, Raba R, Amundson RG and Last RL (1993) Arabidopsis flavonoid mutants are hypersensitive to UVB irradiation. Plant Cell 5: 171-179.

 

 

Yu H, and Li J. Producing hybrid seeds like conventional rice. (2022). Cell Res. 32, 959-960.

 

Yu H, Shao N, and Li J. (2022). An unprecedented one-arrow-two-hawks strategy achieves high yield with early flowering in rice. Mol Plant. 2022 15: 1412-1414.

 

Yu H, and Li J. (2022). Breeding future crops to feed the world through de novo domestication. Nat Commun. 2022 13: 1171.

 

Chen R, Deng Y, Ding Y, Guo J, Qiu J, Wang B, Wang C, Xie Y, Zhang Z, Chen J, Chen L, Chu C, He G, He Z, Huang X, Xing Y, Yang S, Xie D, Liu Y, and Li J. (2022). Rice functional genomics: decades’ efforts and roads ahead. Sci China Life Sci. 65: 33-92.

 

Huang X, Huang S, Han B, and Li J. (2022). The integrated genomics of crop domestication and breeding. Cell. 185: 2828-2839.

 

Shen L, Li J, and Li Y. (2022). Resistant starch formation in rice: Genetic regulation and beyond. Plant Commun. 3: 100329.

 

Zhou S, Ma Y, Shang Y, Qi X, Huang S, and Li J. (2022). Functional diversity and metabolic engineering of plant specialized metabolites. Life Metab. loac019.

 

Yu H, and Li J. (2021). Short and Long Term Challenges in Crop Breeding. Natl Sci Rev 2021, 8: nwab002.

 

Wang B, and Li J. (2021). Rice geographic adaption to poor soil: novel insights for sustainable agriculture. Mol Plant 14: 369-371.

 

Zhang J, Zeng P, Yu H, Meng X, and Li J. (2021). De novo domestication of polyploid rice: a novel breeding strategy and future prospects. Sci Sin Vitae 51: 1467-1476.

 

Chong K, and Li J. (2021). The development of plant science has brought about a new revolution in breeding technology. Sci Sin Vitae 51: 1353-1355.

 

Jing H, Tian Z, Chong K., and Li J. (2021). Progress and perspective of molecular design breeding. Sci Sin Vitae 51: 1356-1365.

 

Cao X, Sun B, Chen H, Zhou J.M., Song X, Liu X, Deng X, Li X, Zhao Y, Zhang J, and Li J. (2021). Approaches and research progresses of marginal land productivity expansion and ecological benefit improvement in China. Bulletin of the Chinese Academy of Sciences 36: 336-348.

 

Tian Z, Wang J W, Li J, and Han B. (2020). Designing future crops: challenges and strategies for sustainable agriculture. Plant J.105:1165-1178.

 

Zhao Y, Yu H, Zhou J M, Smith S M, and Li J. (2020). Malate circulation: linking chloroplast metabolism to mitochondrial ROS. Trends Plant Sci 25, 446-454.

 

Wang B and Li J (2019) Understanding the molecular bases of agronomic trait improvement in rice. Plant Cell. 31: 1416-1417.

 

Bai S, Yu H, Wang B, and Li J (2018). Retrospective and perspective of rice breeding in China. J Genet Genomics 45: 603-612.

 

Wang B, Smith SM and Li J (2018) Genetic Regulation of Shoot Architecture. Annu Rev Plant Biol 69: 437-468.

 

Li J (2016) Rice breeding: never off the table. Natl Sci Rev 3, 275.

 

Qian Q, Guo L, Smith SM, and Li J. (2016) Breeding high-yield superior-quality hybrid super-rice by rational design. Natl Sci Rev 3, 283-294.

 

Xiong G, Li J, and Smith SM. (2016) Evolution of strigolactone perception by seeds of parasitic plants – reinventing the wheel. Mol Plant 9, 493-495.

 

Smith S, and Li J (2014). Signalling and responses to strigolactones and karrikins. Curr Opin Plant Biol 21C, 23-29.

 

Zuo J, and Li J (2014). Molecular genetic dissection of quantitative trait loci regulating rice grain size. Annu Rev Genet 48, 99-118.

 

Zuo J and Li J (2013) Molecular Dissection of Complex Agronomic Traits of Rice: A Team Effort by Chinese Scientists in Recent Years. National Sci Rev doi:10.1093/nsr/nwt004.

 

Li J and Chua N-H (2011) A comprehensive understanding of plant growth and development. Curr Opin Plant Biol 14: 1-3.

 

Wang Y and Li J (2011) Branching in rice. Curr Opin Plant Biol 14: 94-99.

 

Wang Y and Li J (2008). Rice, rising. Nat Genet 40, 1273-1275.

 

Wang Y and Li J (2008). Molecular basis of plant architecture. Annu Rev Plant Biol 59: 253-279.

 

Han B, Xue Y, Li J, Deng X, and Zhang Q (2007) Rice functional genomics research in China. Phil Trans R Soc B 362: 1009–102.

 

Wang Y and Li J (2006) Genes controlling plant architecture. Curr Opin Biotech 17: 123-129.

 

Wang Y, Xue Y and Li J (2005) Towards molecular breeding and improvement of rice in China. Trends Plant Sci 10: 610-614.

 

 

Li J, Meng X, Li J, and Gao C (2019). Gene replacement by intron targeting with CRISPR-Cas9. Methods Mol Biol 1917, pp. 285-296.

 

Bai S, Smith SM, and Li J (2018). Rice Plant Architecture: Molecular Basis and Application in Breeding. In: Rice Genomics, Genetics and Breeding (Sasaki T, Ashikari M), Springer Singapore, pp. 129-154.

 

Li J, Li C, and Smith SM, eds (2017). Hormone Metabolism and Signaling in Plants. London, United Kingdom: ELSEVIER Academic Press. ISBN 978-0-12-811562-6.

 

Smith SM, Li C, Li J (2017). Hormone function in plants. In: Hormone Metabolism and Signaling in Plants (Li J, Li C, Smith SM), Academic Press Elsevier (London UK), pp, 1-38.

 

Wang B, Wang Y, Li J (2017). Strigolactones. In: Hormone Metabolism and Signaling in Plants (Li J, Li C, Smith SM) Academic Press Elsevier (London UK), pp. 327-359.

 

Jiang Z, Li J, Qu L (2017). Auxins. In: Hormone Metabolism and Signaling in Plants (Li J, Li C, Smith SM) Academic Press Elsevier (London UK), pp. 39-76.

 

Xiong G, Wang Y, Li J (2014) Action of strigolactones in plant. In The Enzymes. Vol 35 Signaling Pathways in Plants. (Machida Y, Lin C, Tamanoi F, Eds), Elsevier, pp. 57-84.

 

Sang T and Li J (2013) Molecular genetic basis of the domestication syndrome in cereals. In Cereal Genomics-II (Gupta PK, Varshney RK, eds), Springer Science pp. 319-340.

 

Yu Y, Wing RA and Li J (2013) Understanding genetic molecular basis of rice grain quality. In Genetics and Genomics of Rice(Zhang Q and Wing RA, eds), Springer New York Heidelberg Dordrecht London, pp. 237-254.

 

Wang Y and Li J (2012) Regulation of plant architecture. In Plant Physiology and Molecular Biology (Chen X, Xue H, eds), Higher Education Press, Beijing, pp. 418-432.

 

Wang Y, Chen M and Li J (2007) Rice. In Biotechnology in Agriculture and Forestry Vol. 59 Transgenic Crops IV (E.C. Pua and M.R.Davey, eds), Springer-Verlag Berlin Heidelberg, pp. 35-54.

 

 

 

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