Research Papers

Modifying Heading Date of Nanjing 46 via CRISPR/Cas9-mediated Genome Editing

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  • 1Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/Zhongshan Biological Breeding Laboratory/Key Laboratory of Plant Functional Genomics of the Ministry of Education, Agricultural College of Yangzhou University, Yangzhou 225009, China
    2Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops/Jiangsu Key Laboratory of Crop Genetics and Physiology, Yangzhou University, Yangzhou 225009, China
    3Jiangsu Ruihua Agricultural Technology Co. Ltd, Suqian 223800, China
* email:smzuo@yzu.edu.cn

Received date: 2024-07-09

  Revised date: 2024-08-12

  Online published: 2025-11-19

Abstract

【Objective】 Heading date is a key agronomic trait determining the regional and ecological adaptation of rice cultivars. We edited the heading date genes of the medium-maturing late japonica rice variety Nanjing 46 (NJ46) with excellent tasting to shorten its heading date thereby potentially expanding its planting area.【Method】 Using CRISPR/Cas9 technology, the editing constructs, pCAMBIA1305-Actin:Cas9-sgRNADTH8 and pCAMBIA1305-Actin:Cas9-sgRNAGhd2 targeting DTH8 and Ghd2, respectively, were developed and transformed into NJ46 via Agrobacterium-mediated transformation. Homozygous editing lines without exogenous components were screened and evaluated on heading date, agronomic traits and quality-related traits. 【Result】 Three homozygous mutant lines were obtained. The NJ46-dth8 lines (NJ46-dth8-1 to -3) presented 22-36 days earlier than NJ46 on heading date, while the NJ46-ghd2 lines (NJ46-ghd2-1 to -3) showed 14-15 days earlier. The heading date, major agronomic traits, and quality related components of the homozygous mutant lines were evaluated in different areas of central and northern regions of Jiangsu Province, and compared with the widely cultivated varieties Nanjing 9108 and Nanjing 518 in their respectively ecological zones. NJ46-ghd2-1 exhibited a significantly higher yield per plant than Nanjing 9108, while showing comparable heading date and quality traits, and performed better than the other two knockout lines. NJ46-dth8-1 showed no significant differences from Nanjing 518 in yield per plant and major quality traits, and performed better than the other two knockout lines.【Conclusion】 Knockout of DTH8 and Ghd2 genes in NJ46 yielded new germplasms suitable for planting in the northern and central region of Jiangsu Province, respectively, which will help expand the planting area of this excellent-tasting rice variety.

Cite this article

CHEN Wei, YE Yuanmei, ZHAO Jianhua, FENG Zhiming, CHEN Zongxiang, HU Keming, ZUO Shimin . Modifying Heading Date of Nanjing 46 via CRISPR/Cas9-mediated Genome Editing[J]. Chinese Journal OF Rice Science, 2025 , 39(6) : 760 -770 . DOI: 10.16819/j.1001-7216.2025.240707

References

[1] 姚伟, 佟越强, 刘棋, 臧华栋, 杨亚东, 戚志强, 曾昭海. 全球水稻生产时空变化特征及贸易趋势分析[J]. 南方农业学报, 2022, 53(6): 1776-1784.
  Yao W, Tong Y Q, Liu Q, Zang H D, Yang Y D, Qi Z Q, Zeng Z H. Spatiotemporal change characteristics and trade trend of global rice production[J]. Journal of Southern Agriculture, 2022, 53(6): 1776-1784. (in Chinese with English abstract)
[2] 彭永彬, 杜晨阳, 郑崇珂, 周晋军, 孙伟, 和亚男, 谢先芝. 水稻抽穗期调控基因Hd6的PARMS标记开发与利用[J]. 山东农业科学, 2022, 54(8): 1-6.
  Peng Y B, Du C Y, Zheng C K, Zhou J J, Sun W, He Y N, Xie X Z. Development and application of PARMS markers specific for rice heading date regulation gene Hd6[J]. Shandong Agricultural Sciences, 2022, 54(8): 1-6. (in Chinese with English abstract)
[3] Zhou S R, Zhu S S, Cui S, Hou H G, Wu H Q, Hao B Y, Cai L, Xu Z, Liu L L, Jiang L, Wang H Y, Wan J M. Transcriptional and post-transcriptional regulation of heading date in rice[J]. The New Phytologist, 2021, 230(3): 943-956.
[4] Chen R Z, Deng Y W, Ding Y L, Guo J X, Qiu J, Wang B, Wang C S, Xie Y Y, Zhang Z H, Chen J X, Chen L T, Chu C C, He G C, He Z H, Huang X H, Xing Y Z, Yang S H, Xie D X, Liu Y G, Li J Y. Rice functional genomics: Decades’ efforts and roads ahead[J]. Science China: Life Sciences, 2022, 65(1): 33-92.
[5] 李斌. 利用CRISPR/Cas9技术创制抽穗期改良的水稻新种质[D]. 镇江: 江苏大学, 2022.
  Li B. Development of new rice germplasms with improved heading date via CRISPR/Cas9 technology[D]. Zhenjiang: Jiangsu University, 2022. (in Chinese with English abstract)
[6] 蒋丹, 洪广成, 陈倩, 刘石锋, 秦小健. 水稻抽穗期分子调控研究进展[J]. 分子植物育种, 2019, 17(21): 7071-7077.
  Jiang D, Hong G C, Chen Q, Liu S F, Qin X J. Research progress in molecular regulation of heading date in rice (Oryza sativa)[J]. Molecular Plant Breeding, 2019, 17(21): 7071-7077. (in Chinese with English abstract)
[7] 王婧莹, 赵广欣, 邱冠凯, 方军. 水稻抽穗期途径基因的磷酸化、泛素化研究进展[J]. 中国水稻科学, 2022, 36(3): 215-226.
  Wang J Y, Zhao G X, Qiu G K, Fang J. Advances in research on the modification of the heading date genes in rice by phosphorylation and ubiquitination pathways[J]. Chinese Journal of Rice Science, 2022, 36(3): 215-226. (in Chinese with English abstract)
[8] Dai X D, Ding Y N, Tan L B, Fu Y C, Liu F X, Zhu Z F, Sun X Y, Sun X Y, Gu P, Cai H W, Sun C Q. LHD1, an allele of DTH8/Ghd8, controls late heading date in common wild rice (Oryza rufipogon)[J]. Journal of Integrative Plant Biology, 2012, 54(10): 790-799.
[9] Yan W H, Wang P, Chen H X, Zhou H J, Li Q P, Wang C R, Ding Z H, Zhang Y S, Yu S B, Xing Y Z, Zhang Q F. A major QTL, Ghd8, plays pleiotropic roles in regulating grain productivity, plant height, and heading date in rice[J]. Molecular Plant, 2011, 4(2): 319-330.
[10] Wei X J, Xu J F, Guo H N, Jiang L, Chen S H, Yu C Y, Zhou Z L, Hu P S, Zhai H Q, Wan J M. DTH8 suppresses flowering in rice, influencing plant height and yield potential simultaneously[J]. Plant Physiology, 2010, 153(4): 1747-1758.
[11] Fan X W, Wang P F, Qi F X, Hu Y, Li S L, Zhang J, Liang L W, Zhang Z Y, Liu J H, Xiong L Z, Xing Y Z. The CCT transcriptional activator Ghd2 constantly delays the heading date by upregulating CO3 in rice[J]. Journal of Genetics and Genomics, 2023, 50(10): 755-764.
[12] 王静毅, 甘珊珊, 贾彩红, 刘菊华. CRISPR/Cas9技术在热带作物育种中的应用研究进展[J]. 植物遗传资源学报, 2024, 25(3): 312-322.
  Wang J Y, Gan S S, Jia C H, Liu J H. Application of CRISPR/Cas9 technology in tropical crops breeding[J]. Journal of Plant Genetic Resources, 2024, 25(3): 3312-322. (in Chinese with English abstract)
[13] 顾爽, 郑文静, 马殿荣. CRISPR/Cas9基因编辑系统在水稻育种应用的研究进展[J]. 分子植物育种, 2021, 19(10): 3314-3322.
  Gu S Z, Zhen W J, M, Ma D R. Research progress ofof CRISPR/Cas9 gene-editing system in rice breeding[J]. Molecular Plant Breeding, 2021, 19(10): 33314-3322. (in Chinese with English abstract)
[14] Gupta D, Bhattacharjee O, Mandal D, Sen M K, Dey D, Dasgupta A, Kazi T A, Gupta R, Sinharoy S, Acharya K, Chattopadhyay D, Ravichandiran V, Roy S, Ghosh D. CRISPR-Cas9 system: A new-fangled dawn in gene editing[J]. Life Sciences, 2019, 232: 116636.
[15] 林萌萌, 李春娟, 闫彩霞, 孙全喜, 赵小波, 王娟, 苑翠玲, 单世华. CRISPR/Cas9基因编辑技术在作物中的应用[J]. 核农学报, 2021, 35(6): 1329-1339.
  Lin M M, Li C J, Yan C X, Sun Q X, Zhao X B, Wang J, Yuan C L, Shan S H. Application of CRISPR/Cas9 gene editing technology in crops[J]. Journal of Nuclear Agricultural Sciences, 2021, 35(6): 1329-1339. (in Chinese with English abstract)
[16] 牛淑琳, 鞠培娜, 周冠华, 戴南平, 周晋军, 谢先芝, 郑崇珂. 利用CRISPR/Cas9技术编辑OsRR22基因创制耐盐水稻种质资源[J]. 山东农业科学, 2023, 55(2): 30-35.
  Niu S L, Ju P N, Z, Zhou G H, D, Dai N P, Z, Zhou J J, Xie X Z, Zheng C K. Creation of salt-tolerant rice germplasm by editingediting OsRR22 gene via CRISPR/Cas9 technique [e[J]. Shandong Agricultural Sciences, 2023, 55(2): 30-35. (in Chinese with English abstract)
[17] 李刚, 高清松, 李伟, 张雯霞, 王健, 程保山, 王迪, 高浩, 徐卫军, 陈红旗, 纪剑辉. 定向敲除SD1基因提高水稻的抗倒性和稻瘟病抗性[J]. 中国水稻科学, 2023, 37(4): 359-367.
  Li G, Gao Q S, Li W, Zhang W W, Wang J, Cheng B S, Wang D, Gao H, Xu W J, Chen H Q, Ji J H. Directed knockout of SD1 gene improves lodging resistance and blast resistance of rice[J]. Chinese Journal of Rice Science, 2023, 37(4): 359-367. (in Chinese with English abstract)
[18] Zhang C J, Yun P, Xia J F, Zhou K N, Wang L L, Zhang J W, Zhao B, Yin D K, Fu Z, Wang Y L, Ma T C, Li Z F, Wu D X. CRISPR/Cas9-mediated editing of Wx and BADH2 genes created glutinous and aromatic two-line hybrid rice[J]. Molecular Breeding, 2023, 43(4): 24.
[19] Hori K, Ogiso-Tanaka E, Matsubara K, Yamanouchi U, Ebana K, Yano M. Hd16, a gene for casein kinase I, is involved in the control of rice flowering time by modulating the day-length response[J]. The Plant Journal, 2013, 76(1): 36-46.
[20] Matsubara K, Ogiso-Tanaka E, Hori K, Ebana K, Ando T, Yano M. Natural variation in Hd17, a homolog of Arabidopsis ELF3 that is involved in rice photoperiodic flowering[J]. Plant &Cell Physiology, 2012, 53(4): 709-716.
[21] Xue W Y, Xing Y Z, Weng X Y, Zhao Y, Tang W J, Wang L, Zhou H J, Yu S B, Xu C G, Li X H, Zhang Q F. Natural variation in Ghd7 is an important regulator of heading date and yield potential in rice[J]. Nature Genetics, 2008, 40(6): 761-767.
[22] Imran M, Shafiq S, T, Tang X R. CRISPR-Cas9-mediated editing ofof BADH2 gene triggeredtriggered fragrance revolution in rice[J]. Physiologia Plantarum, 2023, 175(1): e13871.
[23] Fiaz S, Ahmad S, Ali Noor M, Wang X K, Younas A, Riaz A, Riaz A, Ali F. Applications of the CRISPR/Cas9 system for rice grain quality improvement: Perspectives and opportunities[J]. International Journal of Molecular Sciences, 2019, 20(4): 888.
[24] Chen H M, Ye R, Liang Y, Zhang S C, Liu X L, Sun C J, Li F B, Yi J C. Generation of low-cadmium rice germplasms via knockout of OsLCD using CRISPR/Cas9[J]. Journal of Environment Science (China), 2023, 126: 138-152.
[25] Sheng X B, Ai Z Y, Tan Y N, Hu Y Y, Guo X Y, Liu X L, Sun Z Z, Yu D, Chen J, Tang N, Duan M J, Yuan D Y.. Novel salinity-tolerant third-generation hybrid rice developed via CRISPR/Cas9-mediated gene editing[J]. International Journal of Molecular Sciences, 2023, 24(9): 8025.
[26] Zhang Y, Lin X F, Li L, Piao R H, Wu S Q, Song A Q, Gao M M, Jin Y M. CRISPR/Cas9-mediated knockout of Bsr-d1 enhances the blast resistance of rice in Northeast China[J]. Plant Cell Reports, 2024, 43(4): 100.
[27] 张浩, 柳絮, 宣宁, 张华, 高瑞钰, 赵倩倩, 姚方印. 利用CRISPR/Cas9技术编辑DTH8基因改良水稻99-25的抽穗期[J]. 华北农学报, 2020, 35(6): 58-66.
  Zhang H L, Liu X, Xuan N Z, Zhang H, Gao R Y Z, Zhao Q Q, Y, Yao F Y. Editing DTH8 gene using CRISPR/Cas9 technology to improveimprove heading date of rice 99-25[J]. Acta Agriculturae Boreali-Sinica, 2020, 35(6): 58-66. (in Chinese with English abstract)
[28] Zhou S R, Cai L, Wu H Q, Wang B X, Gu B, Cui S, Huang X L, Xu Z, Hao B Y, Hou H G, Hu Y, Li C, Tian Y L, Liu X, Chen L M, Liu S J, Jiang L, Wan J M. Fine-tuning rice heading date through multiplex editing of the regulatory regions of key genes by CRISPR-Cas9[J]. Plant Biotechnology Journal, 2024, 22(3): 751-758.
[29] Sun K L, Huang M H, Zong W B, Xiao D D, Lei C, Luo Y Q, Song Y G, Li S T, Hao Y, Luo W N, Xu B Q, Guo X T, Wei G L, Chen L T, Liu Y G, Guo J X. Hd1, Ghd7, and DTH8 synergistically determine the rice heading date and yield-related agronomic traits[J]. Journal of Genetics and Genomics, 2022, 49(5): 437-447.
[30] Fujino K. Days to heading, controlled by the heading date genes, Hd1 and DTH8, limits rice yield-related traits in Hokkaido, Japan[J]. Breeding Science, 2020, 70(3): 277-282.
[31] Liu J H, Shen J Q, Xu Y, Li X H, Xiao J H, Xiong L Z. Ghd2, a CONSTANS-like gene, confers drought sensitivity through regulation of senescence in rice[J]. Journal of Experimental Botany, 2016, 67(19): 5785-5798.
[32] 康雪蒙, 薄晋芳, 马梦影, 巩文靓, 姜恭好, 段海燕. 淀粉合成基因与水稻胶稠度、糊化温度和直链淀粉含量相关性分析[J]. 东北农业科学, 2023, 48(1): 4-29.
  Kang X M, Bo J F, Ma M Y, Gong W J, Jiang G H, Duan H Y. Correlation analysis of starch synthesis genes with rice gel consistency, gelatinization temperature, and amylose content[J]. Journal of Northeast Agricultural Sciences, 2023, 48(1): 4-29. (in Chinese with English abstract)
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