Rice Functional Genomics and Agrobiotechnology
The ChuLab mainly focuses on functional genomics and Agrobiotechnology by the use of rice as a model system. Besides tremendous efforts on germplasm collection, generation and screening of mutant population in last decades, the germplasms and mutants involved in agronomically important traits related to the plant architecture, source supply, and sink capacity, etc have been characterized, to dissect the molecular basis for rice yield improvement. Besides functional characterization of rice genes, we also make significant effort on Agrobiotechnology by using the knowledge, resources and tools obtained from our studies and combine approaches of genetics, molecular technologies, such as marker-assisted selection to improve complex agronomic traits. We are particularly interested in leaf senescence, grain size, nutrient use efficiency, the key agronomic traits in rice production.
Liu Y#, Wang H#, Jiang Z, Wang W, Xu R, Wang Q, Zhang Z, Li A, Liang Y, Ou S, Liu X, Cao S, Tong H, Wang Y, Zhou F, Liao H, Hu B*, and Chu C* (2021) Genomic basis of geographical adaptation to soil nitrogen in rice. Nature 590: 600-605.
Highlighted by Wei Li (2021) Adaptation to Nitrogen. Nature Genetics. 53(2): 127.
Spotlighted by Bing Wang and Jiayang Li (2021) Rice Geographic Adaption to Poor Soil: Novel Insight in Sustainable Agriculture. Molecular Plant. 14: 369-371.
Featured by Alisdair Fernie (2021) Using landrace transcription factor alleles to increase yield in modern rice under low input agriculture. Journal of Plant Physiology. 258-259: 153362.
Commented by Xianran Li and Jianming Yu (2021) Retrofitting elites with ancestral alleles for sustainable agriculture. Science China Life Sciences. 64(6):1029-1030.
Mini-reviewed by Fanmiao Wang, Hideki Yashida and Makoto Matsuoka (2021) Making the “Green Revolution” Truly Green: improving crop nitrogen use efficiency. Plant and Cell Physiology. doi: 10.1093/pcp/pcab051.
热点评述: 宣伟, 徐国华. 植物适应土壤氮素环境的基因选择: 以水稻为例. 植物学报. 56(1)(2021), 1-5.
Selected by F1000Prime by Jian Feng Ma, Jiming Jiang.
Zhang Z#, Li Z#, Wang W, Jiang Z, Guo L, Wang X, Qian Y, Huang X, Liu Y, Liu X, Qiu Y, Li A, Yan Y, Xie J, Kopriva S, Li L, Kong F, Li B, Wang Y, Hu B*, and Chu C* (2021) Modulation of Nitrate-Induced Phosphate Response by the MYB Transcription Factor RLI1/HINGE1 in the Nucleus. Mol. Plant 14(3): 517-529.
Fang J^*, Zhang F^, Wang H, Wang W, Zhao F, Li Z, Sun C, Chen F, Xu F, Chang S, Wu L, Bu Q, Wang P, Xie J, Chen F, Huang X, Zhang Y, Zhu X, Han B, Deng X*, and Chu C* (2019) Ef-cd locus shortens rice maturity duration without yield penalty. Proc. Natl. Acad. Sci. USA 116(37): 18717-18722.
Highlighted in in this issue (2019) Rice maturity time and yield. Proc. Natl. Acad. Sci. USA 116(37): 18149-18151.
Spotlighted by Yang Yu and Qian Qian (2019) Rice breeding: A long noncoding locus with great potential. Molecular Plant doi: 10.1016/j.molp.2019.10.008.
Featured by Shuo Zhang and Changying Wu (2019) Long non-coding RNA Ef-cd regulates rice early maturation and stable yield. Chinese Bulletin of Botany 54(5): 1-4.
Zhang J^, Liu Y-X^, Zhang N^, Hu B^, Jin T^, Xu H, Qin Y, Yan P, Zhang X, Guo X, Hui J, Cao S, Wang X, Wang C, Wang H, Qu B, Fan G, Yuan L, Garrido-Oter R, Chu C*, and Bai Y* (2019) NRT1.1B is associated with root microbiota composition and nitrogen use in field-grown rice. Nature Biotechnol. 37: 676-684.
Featured by Xiaolin Wang and Ertao Wang (2019) NRT1.1B connects root microbiota and nitrogen use in rice. Chinese Bulletin of Botany 54(3): 285-287.
Hu B^*, Jiang Z^, Wang W^, Qiu Y^, Zhang Z, Liu Y, Gao X, Liu L, Qian Y, Huang X, Yu F, Li A, Kang S, Wang Y, Xie J, Cao S, Zhang L, Wang Y, Xie Q, Kopriva S, and Chu C* (2019) Nitrate-NRT1.1B-SPX4 cascade integrates nitrogen and phosphorus signaling networks in plants. Nature Plants 5: 401–413.
Tong H and Chu C (2018) Functional specificities of brassinosteroid and potential utilization for crop improvement. Trends Plant Sci. 23(11): 1016-1028. (Invited Review)
Wang M^, Li W^, Fang C^, Xu F^, Liu Y^, Wang Z, Yang R, Zhang M, Liu S, Lu S, Lin T, Tang J, Wang Y, Wang H, Lin H, Zhu B, Chen M, Kong F, Liu B, Zeng D, Jackson SC*, Chu C* & Tian Z* (2018) Parallel selection on a dormancy gene during domestication of crops from multiple families.Nature Genet. 50(10): 1435-1441.
Featured in Genome Biology by Rendón-Anaya M and Herrera-Estrella A (2018) The advantage of parallel selection of domestication genes to accelerate crop improvement. 19(1): 147.
Liu C^, Ou S^, Mao B, Tang J, Wang W, Wang H, Cao S, Schläppi MR, Zhao B, Xiao G, Wang X and Chu C (2018) Early selection of bZIP73 facilitated adaptation of japonica rice to cold climates. Nature Commun 9(1): 3302
Wang W^, Hu B^, Yuan D, Liu Y, Che R, Hu Y, Ou S, 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, Mergen S, Jing H, Li J, and Chu C
(2018) Expression of the nitrate transporter OsNRT1.1A/OsNPF6.3
confers high yield and early maturation in rice. Plant Cell 30(3): 638-651
Highlighted in ScienceDaily on February 23, 2018 by Jennifer Mach: New approach to improve nitrogen use, enhance yield, and promote flowering in rice.
Recommended by F1000Prime Doi: 10.3410/f.732773314.793543251.
Tang J and Chu C (2017) microRNAs in crop improvement: fine-tuners for complex traits. Nature Plants. 3: 17077.
Cover Story. Highlighted in Asian Scientist Magazine on May 2, 2017: Apparently, Asian Wild Rice Isn’t So Wild Anymore.
Zhang B, Zhang L, Li F, Zhang D, Liu X, Wang H, Xu Z, Chu C*, Zhou Y* (2017) Control of secondary cell wall patterning involves xylan deacetylation by a GDSL esterase. Nature Plants. 3: 17017.
Featured in Nature Plants with News & Views by Scheller HV (2017) Plant cell wall: Never too much acetate. Nature Plants. 3: 17024.
Hu B and Chu C (2017) Node-based transporter: Switching phosphorus distribution. Nature Plants. 3: 17002.
Wang H, Xu X, Vieira FG, Xiao Y, Li Z, Wang J, Nielsen R, and Chu C (2016) The power of inbreeding: NGS based GWAS of rice reveals convergent evolution during rice domestication. Mol. Plant 9(7):975-985
Cover Story. Featured in Molecular Plant by Xuehui Huang (2016) “From Genetic Mapping to Molecular Breeding: Genomics Have Paved the Highway”. 9(7):959-960.
Gao S, Fang J, Xu F, Wang W, Chu C (2016) Rice HOX12 regulates panicle exsertion by directly modulating the expression of ELONGATED UPPERMOST INTERNODE1. Plant Cell 28(3): 680-695.
Highlighted in Science Daily on April 1, 2016 by Jennifer Lockhart: Feeding the world: Uncovering a key regulator of flower head development in rice.
Che R, Tong H, Shi B, Liu Y, Fang S, Liu D, Xiao Y, Hu B, Liu L, Wang H, Zhao M, Chu C (2015) Control of grain size and rice yield by GL2-mediated brassinosteroid responses. Nature Plants 2: 15195.
Featured with News and Views in Nature Plants by Hirokazu Tsukaya: Yield increase: GRFs provide the key. 2: 15210.
Liu L^, Tong H^, Xiao Y, Che R, Xu F, Hu B, Liang C, Chu J, Li J*, Chu C*
(2015) Activation of Big Grain1
significantly improves grain size by regulating auxin transport in rice. Proc. Natl. Acad. Sci. USA 112(35): 11102-11107
Hu B, Wang W, Ou S, Tang J, Li H, Che R, Zhang Z, Chai X, Wang H, Wang Y, Liang C, Liu L, Piao Z, Deng Q, Deng K, Xu C, Liang Y, Zhang L, Li L, Chu C (2015) Variation in NRT1.1B contributes to nitrate-use divergence between rice subspecies. Nature Genet. 47(7): 834-838.
Featured with News and Views in Nature Plants by Chao DY & Lin HX (2015) Nitrogen-use efficiency: Transport solution in rice variations. 1: 15096.
Tong H, Xiao Y, Liu D, Gao S, Liu L, Yin Y, Jin Y, Qian Q, Chu C (2014) Brassinosteroid regulates cell elongation by modulating gibberellin metabolism in rice. Plant Cell 26(11): 4376-4393.
Liang C, Wang Y, Zhu Y, Tang J, Hu B, Liu L, Ou S, Wu H, Sun X, Chu J, and Chu C (2014) OsNAP connects absisic acid and leaf senescence by fine tuning absisic acid biosynthesis and directly targeting senescence-associated genes in rice. Proc. Natl. Acad. Sci. USA 111(27): 10013-10018.
Sun C, Fang J, Zhao T, Xu B, Zhang F, Liu L, Tang J, Zhang G, Deng X, Chen F, Qian Q, Cao X, Chu C (2012) The histone methyltransferase SDG724 mediates H3K36me2/3 deposition at MADS50 and RFT1, and promotes flowering in rice. Plant Cell 24(8): 3235-3247.
Tong H, Liu L, Jin Y, Du L, Yin Y, Qian Q, Zhu L, Chu C (2012) DWARF AND LOW-TILLERING acts as a direct downstream target of a GSK3/SHAGGY-like kinase to mediate brassinosteroid responses in rice. Plant Cell 24(6): 2562–2577.
Wu HJ, Zhang Z, Wang JY, Oh DH, Dassanayake M, Liu B, Huang Q, Sun HX, Xia R, Wu Y, Wang Y, Yang Z, Liu Y, Zhang W, Zhang H, Chu J, Yan C, Fang S, Zhang J, Wang Y, Zhang F, Wang G, Lee SY, Cheeseman JM, Yang B, Li B, Min J, Yang L, Wang J*, Chu C*, Chen SY*, Bohnert HJ*, Zhu J-K*, Wang XJ*, Xie Q* (2012) Insights into salt tolerance from the genome of Thellungiella salsuginea. Proc. Natl. Acad. Sci. USA 109(30): 12219-12224 (*Corresponding author).
Ding Y, Wang X, Su L, Zhai J, Cao S, Zhang D, Liu C, Bi Y, Qian Q, Cheng Z, Chu C*, Cao X* (2007) SDG714, a histone H3K9 methyltransferase, is involved in Tos17 DNA methylation and transposition in rice. Plant Cell 19(1): 9-22 (*Corresponding author).