[en] Wheat (Triticum aestivum L.) is a staple food crop consumed by more than 30% of world population. Nitrogen (N) fertilizer has been applied broadly in agriculture practice to improve wheat yield to meet the growing demands for food production. However, undue N fertilizer application and the low N use efficiency (NUE) of modern wheat varieties are aggravating environmental pollution and ecological deterioration. Under nitrogen-limiting conditions, the rice (Oryza sativa) abnormal cytokinin response1 repressor1 (are1) mutant exhibits increased NUE, delayed senescence and consequently, increased grain yield. However, the function of ARE1 ortholog in wheat remains unknown. Here, we isolated and characterized three TaARE1 homoeologs from the elite Chinese winter wheat cultivar ZhengMai 7698. We then used CRISPR/Cas9-mediated targeted mutagenesis to generate a series of transgene-free mutant lines either with partial or triple-null taare1 alleles. All transgene-free mutant lines showed enhanced tolerance to N starvation, and showed delayed senescence and increased grain yield in field conditions. In particular, the AABBdd and aabbDD mutant lines exhibited delayed senescence and significantly increased grain yield without growth defects compared to the wild-type control. Together, our results underscore the potential to manipulate ARE1 orthologs through gene editing for breeding of high-yield wheat as well as other cereal crops with improved NUE.
Disciplines :
Agriculture & agronomy
Author, co-author :
Zhang, Jiahui ; Université de Liège - ULiège > TERRA Research Centre ; Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
Zhang, Huating; Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China ; School of Agricultural Sciences, Zhengzhou University, Zhengzhou, 450001, China
Li, Shaoya; Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
Li, Jingying; Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
Yan, Lei; Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
Xia, Lanqin; Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
Language :
English
Title :
Increasing yield potential through manipulating of an ARE1 ortholog related to nitrogen use efficiency in wheat by CRISPR/Cas9.
We thank Prof. Jianru Zuo for sharing unpublished data. We apologize to those whose work we were unable to cite due to space and reference limitations. This work is funded by National Key Research and Development Program of China (2020YFE0202300), the Agricultural Science and Technology Innovation Program (CAAS‐ZDRW202109), Fundamental Research Funds for Central Non‐Profit of Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (S2021ZD03), and National Engineering Laboratory of Crop Molecular Breeding.We thank Prof. Jianru Zuo for sharing unpublished data. We apologize to those whose work we were unable to cite due to space and reference limitations. This work is funded by National Key Research and Development Program of China (2020YFE0202300), the Agricultural Science and Technology Innovation Program (CAAS-ZDRW202109), Fundamental Research Funds for Central Non-Profit of Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (S2021ZD03), and National Engineering Laboratory of Crop Molecular Breeding.
Abe, F., Haque, E., Hisano, H., Tanaka, T., Kamiya, Y., Mikami, M., Kawaura, K., Endo, M., Onishi, K., Hayashi, T., and Sato, K. (2019). Genome-edited triple-recessive mutation alters seed dormancy in wheat. Cell Rep. 28: 1362–1369.
Altpeter, F., Vasil, V., Srivastava, V., Stöger, E., and Vasil, I.K. (1996). Accelerated production of transgenic wheat (Triticum aestivum L.) plants. Plant Cell Rep. 16: 12–17.
Biswas, S., Tian, J., Li, R., Chen, X., Luo, Z., Chen, M., Zhao, X., Zhang, D., Persson, S., Yuan, Z., and Shi, J. (2020). Investigation of CRISPR/Cas9-induced SD1 rice mutants highlights the importance of molecular characterization in plant molecular breeding. J. Genet. Genomics 47: 273–280.
Colombi, T., Herrmann, A.M., Vallenback, P., and Keller, T. (2019). Cortical cell diameter is key to energy costs of root growth in wheat. Plant Physiol. 180: 2049–2060.
Forde, B.G., and Lea, P.J. (2007). Glutamate in plants: Metabolism, regulation, and signalling. J. Exp. Bot. 58: 2339–2358.
Gao, Z., Wang, Y., Chen, G., Zhang, A., Yang, S., Shang, L., Wang, D., Ruan, B., Liu, C., Jiang, H., Dong, G., Zhu, L., Hu, J., Zhang, G., Zeng, D., Guo, L., Xu, G., Teng, S., Harberd, N.P., and Qian, Q. (2019). The indica nitrate reductase gene OsNR2 allele enhances rice yield potential and nitrogen use efficiency. Nat. Commun. 10: 1–10.
Good, A.G., and Beatty, P.H. (2011). Fertilizing nature: A tragedy of excess in the commons. PLoS Biol. 9: e1001124.
Guo, M., Wang, Q., Zong, Y., Nian, J., Li, H., Li, J., Wang, T., Gao, C., and Zuo, J. (2021). Genetic manipulations of taare1 boost nitrogen utilization and grain yield in wheat. J. Genet. Genomics https://doi.org/10.1016/j.jgg.2021.07.003
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., and Chu, C. (2015). Variation in NRT1.1B contributes to nitrate-use divergence between rice subspecies. Nat. Genet. 47: 834–838.
Krouk, G., Lacombe, B., Bielach, A., Perrine-Walker, F., Malinska, K., Mounier, E., Hoyerova, K., Tillard, P., Leon, S., Ljung, K., Zazimalova, E., Benkova, E., Nacry, P., and Gojon, A. (2010). Nitrate-regulated auxin transport by NRT1.1 defines a mechanism for nutrient sensing in plants. Dev. Cell 18: 927–937.
Lea, P.J., and Miflin, B.J. (2003). Glutamate synthase and the synthesis of glutamate in plants. Plant Physiol. Biochem. 41: 555–564.
Li, J., Luo, J., Xu, M., Li, S., Zhang, J., Li, H., Yan, L., Zhao, Y., and Xia, L. (2019). Plant genome editing using xCas9 with expanded PAM compatibility. J. Genet. Genomics 46: 277–280.
Li, J., Jiao, G., Sun, Y., Chen, J., Zhong, Y., Yan, L., Jiang, D., Ma, Y., and Xia, L. (2021b). Modification of starch composition, structure and properties through editing of TaSBEIIa in both winter and spring wheat varieties by CRISPR/Cas9. Plant Biotechnol. J. 19: 937–951.
Li, S., Tian, Y., Wu, K., Ye, Y., Yu, J., Zhang, J., Liu, Q., Hu, M., Li, H., Tong, Y., Harberd, N.P., and Fu, X. (2018). Modulating plant growth-metabolism coordination for sustainable agriculture. Nature 560: 595–600.
Li, S., Zhang, C., Li, J., Yan, L., Wang, N., and Xia, L. (2021a). Present and future prospects of wheat improvement through genome editing and advanced technologies. Plant Commun. 100211.
Li, T., Liao, K., Xu, X., Gao, Y., Wang, Z., Zhu, X., Jia, B., and Xuan, Y. (2017). Wheat ammonium transporter (AMT) gene family: Diversity and possible role in host-pathogen interaction with stem rust. Front. Plant Sci. 8: 1637.
Lichtenthaler, H.K. (1987). Chlorophylls and carotenoids: pigments of photosynthetic biomembranes. Methods Enzymol. 148: 350–382.
Liu, C., Zhong, Y., Qi, X., Chen, M., Liu, Z., Chen, C., Tian, X., Li, J., Jiao, Y., Wang, D., Wang, Y., Li, M., Xin, M., Liu, W., Jin, W., and Chen, S. (2020). Extension of the in vivo haploid induction system from diploid maize to hexaploid wheat. Plant Biotechnol. J. 18: 316–318.
Liu, H., Wang, K., Tang, H., Gong, Q., Du, L., Pei, X., and Ye, X. (2020). CRISPR/Cas9 editing of wheat TaQ genes alters spike morphogenesis and grain threshability. J. Genet. Genomics 47: 563–575.
Liu, W., Xie, X., Ma, X., Li, J., Chen, J., and Liu, Y.G. (2015). DSDecode: A web-based tool for decoding of sequencing chromatograms for genotyping of targeted mutations. Mol. Plant 8: 1431–1433.
Luo, J., Li, S., Xu, J., Yan, L., Ma, Y., and Xia, L. (2021). Pyramiding favorable alleles in an elite wheat variety in one generation by CRISPR-Cas9-mediated multiplex gene editing. Mol. Plant 14: 847–850.
Lv, J., Yu, K., Wei, J., Gui, H., Liu, C., Liang, D., Wang, Y., Zhou, H., Carlin, R., Rich, R., Lu, T., Que, Q., Wang, W.C., Zhang, X., and Kelliher, T. (2020). Generation of paternal haploids in wheat by genome editing of the centromeric histone CENH3. Nat. Biotechnol. 38: 1397–1401.
Lv, X., Zhang, Y., Hu, L., Zhang, Y., Zhang, B., Xia, H., Du, W., Fan, S., and Kong, L. (2021). Low-nitrogen stress stimulates lateral root initiation and nitrogen assimilation in wheat: Roles of phytohormone signaling. J. Plant Growth Regul. 40: 436–450.
Ma, X., Zhang, Q., Zhu, Q., Liu, W., Chen, Y., Qiu, R., Wang, B., Yang, Z., Li, H., Lin, Y., Xie, Y., Shen, R., Chen, S., Wang, Z., Chen, Y., Guo, J., Chen, L., Zhao, X., Dong, Z., and Liu, Y.G. (2015). A robust CRISPR/Cas9 system for convenient, high-efficiency multiplex genome editing in monocot and dicot plants. Mol. Plant 8: 1274–1284.
Maccaferri, M., El-Feki, W., Nazemi, G., Salvi, S., Canè, M.A., Colalongo, M.C., Stefanelli, S., and Tuberosa, R. (2016). Prioritizing quantitative trait loci for root system architecture in tetraploid wheat. J. Exp. Bot. 67: 1161–1178.
Miller, A.J., Fan, X., Orsel, M., Smith, S.J., and Wells, D.M. (2007). Nitrate transport and signalling. J. Exp. Bot. 58: 2297–2306.
Okada, A., Arndell, T., Borisjuk, N., Sharma, N., Watson-Haigh, N.S., Tucker, E.J., Baumann, U., Langridge, P., and Whitford, R. (2019). CRISPR/Cas9-mediated knockout of Ms1 enables the rapid generation of male-sterile hexaploid wheat lines for use in hybrid seed production. Plant Biotechnol. J. 17: 1905–1913.
Quraishi, U.M., Abrouk, M., Murat, F., Pont, C., Foucrier, S., Desmaizieres, G., Confolent, C., Rivière, N., Charmet, G., Paux, E., Murigneux, A., Guerreiro, L., Lafarge, S., Le Gouis, J., Feuillet, C., and Salse, J. (2011). Cross-genome map based dissection of a nitrogen use efficiency ortho-metaQTL in bread wheat unravels concerted cereal genome evolution. Plant J. 65: 745–756.
Sánchez-León, S., Gil-Humanes, J., Ozuna, C.V., Giménez, M.J., Sousa, C., Voytas, D.F., and Barro, F. (2018). Low-gluten, nontransgenic wheat engineered with CRISPR/Cas9. Plant Biotechnol. J. 16: 902–910.
Sinha, S.K., Rani, M., Bansal, N., Gayatri, Venkatesh, K., and Mandal, P.K. (2015). Nitrate starvation induced changes in root system architecture, carbon:nitrogen metabolism, and miRNA expression in nitrogen-responsive wheat genotypes. Appl. Biochem. Biotechnol. 177: 1299–1312.
Tang, W., Ye, J., Yao, X., Zhao, P., Xuan, W., Tian, Y., Zhang, Y., Xu, S., An, H., Chen, G., Yu, J., Wu, W., Ge, Y., Liu, X., Li, J., Zhang, H., Zhao, Y., Yang, B., Jiang, X., Peng, C., Zhou, C., Terzaghi, W., Wang, C., and Wan, J. (2019). Genome-wide associated study identifies NAC42-activated nitrate transporter conferring high nitrogen use efficiency in rice. Nat. Commun. 10: 1–11.
Temple, S.J., Vance, C.P., and Gantt, J.S. (1998). Glutamate synthase and nitrogen assimilation. Trends Plant Sci. 3: 51–56.
Wang, Q., Su, Q., Nian, J., Zhang, J., Guo, M., Dong, G., Hu, J., Wang, R., Wei, C., Li, G., Wang, W., Guo, H.S., Lin, S., Qian, W., Xie, X., Qian, Q., Chen, F., and Zuo, J. (2021). The Ghd7 transcription factor represses ARE1 expression to enhance nitrogen utilization and grain yield in rice. Mol. Plant 14: 1012–1023.
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., and Chu, C. (2018a). Expression of the nitrate transporter gene OsNRT1.1A/OsNPF6.3 confers high yield and early maturation in rice. Plant Cell 30: 638–651.
Wang, W., Pan, Q., Tian, B., He, F., Chen, Y., Bai, G., Akhunova, A., Trick, H.N., and Akhunov, E. (2019). Gene editing of the wheat homologs of TONNEAU1-recruiting motif encoding gene affects grain shape and weight in wheat. Plant J. 100: 251–264.
Wang, W., Simmonds, J., Pan, Q., Davidson, D., He, F., Battal, A., Akhunova, A., Trick, H.N., Uauy, C., and Akhunov, E. (2018c). Gene editing and mutagenesis reveal inter-cultivar differences and additivity in the contribution of TaGW2 homoeologues to grain size and weight in wheat. Theor. Appl. Genet. 131: 2463–2475.
Wang, Y., Cheng, X., Shan, Q., Zhang, Y., Liu, J., Gao, C., and Qiu, J.L. (2014). Simultaneous editing of three homoeoalleles in hexaploid bread wheat confers heritable resistance to powdery mildew. Nat. Biotechnol. 32: 947–951.
Wang, Y., Teng, W., Wang, Y., Ouyang, X., and Tong, Y. (2020). The wheat cytosolic glutamine synthetase GS1.1 modulates N assimilation and spike development by characterizing CRISPR-edited mutants. bioRxiv https://doi.org/10.1101/2020.09.03.281014
Xu, G., Fan, X., and Miller, A.J. (2012). Plant nitrogen assimilation and use efficiency. Annu. Rev. Plant Biol. 63: 153–182.
Xu, X., Wu, K., Xu, R., Yu, J., Wang, J., Zhao, Y., Wang, Y., Song, W., Wang, S., Gao, Z., Zhong, Y., Li, X., Liao, H., and Fu, X. (2019). Pyramiding of the dep1-1 and NAL1NJ6 alleles achieves sustainable improvements in nitrogen-use efficiency and grain yield in japonica rice breeding. J. Genet. Genomics 46: 325–328.
Yang, X., Nian, J., Xie, Q., Feng, J., Zhang, F., Jing, H., Zhang, J., Dong, G., Liang, Y., Peng, J., Wang, G., Qian, Q., and Zuo, J. (2016). Rice ferredoxin-dependent glutamate synthase regulates nitrogen-carbon metabolomes and is genetically differentiated between japonica and indica subspecies. Mol. Plant 9: 1520–1534.
Yin, L.-P., Li, P., Wen, B., Taylor, D., and Berry, J.O. (2007). Characterization and expression of a high-affinity nitrate system transporter gene (TaNRT2.1) from wheat roots, and its evolutionary relationship to other NTR2 genes. Plant Sci. 172: 621–631.
Zhan, X., Lu, Y., Zhu, J.K., and Botella, J.R. (2021). Genome editing for plant research and crop improvement. J. Integr. Plant Biol. 63: 3–33.
Zhang, S., Zhang, Y., Li, K., Yan, M., Zhang, J., Yu, M., Tang, S., Wang, L., Qu, H., Luo, L., Xuan, W., and Xu, G. (2021). Nitrogen mediates flowering time and nitrogen use efficiency via floral regulators in rice. Curr. Biol. 31: 671–683.
Zhang, Y., Li, D., Zhang, D., Zhao, X., Cao, X., Dong, L., Liu, J., Chen, K., Zhang, H., Gao, C., and Wang, D. (2018). Analysis of the functions of TaGW2 homoeologs in wheat grain weight and protein content traits. Plant J. 94: 857–866.
Zhang, Z., Hua, L., Gupta, A., Tricoli, D., Edwards, K.J., Yang, B., and Li, W. (2019). Development of an Agrobacterium-delivered CRISPR/Cas9 system for wheat genome editing. Plant Biotechnol. J. 17: 1623–1635.