Chinese Journal OF Rice Science >
Analysis of Nitrogen-response Related Loci in japonica Rice Varieties from Jiangsu Province
Received date: 2023-10-09
Revised date: 2023-11-14
Online published: 2024-09-10
【Objective】In order to identify nitrogen-response related traits and genes, the study was carried out in Jiangsu Province, a region with a long history of rice breeding and a wide range of germplasm sources, screening nitrogen efficient lines, and finally reducing the amount of nitrogen fertilizer.【Method】We used 76 japonica rice varieties bred in 1983-2014 from different regions of Jiangsu Province as experimental materials. We investigated nitrogen-response related traits at the maturity stage at three nitrogen fertilizer levels, as well as the nitrogen-response related loci. The GATK4 and Admixture software were used for population variations calling and population structure analysis.【Result】 We selected nitrogen insensitive varieties such as Huajing 5 and Ningjing 5. By using association analysis, we identified neighboring loci of known or reported nitrogen related genes (OsAMT1.2, OsNRT2.4 and Fd-GOGAT1, etc.); Further analysis focused on the favorable variation of these loci and the varieties carrying advantageous loci. 【Conclusion】 This study identified the differences in nitrogen response and excellent loci carried by japonica rice varieties in Jiangsu Province. The findings provide both genetic materials and superior loci for breeding nitrogen responsive varieties.
Key words： nitrogen-response; variety selection; superior site
TANG Weijie, CHEN Haiyuan, ZHANG Suobing, TANG Jun, LIN Jing, FANG Xianwen, ZHANG Shunan, XIAO Ning, WU Yunyu, LI Aihong, ZHANG Yunhui . Analysis of Nitrogen-response Related Loci in japonica Rice Varieties from Jiangsu Province[J]. Chinese Journal OF Rice Science, 2024 , 38(5) : 535 -543 . DOI: 10.16819/j.1001-7216.2024.231004
| [1] | 应兴华, 曹立勇, 胡培松, 程式华. 加快水稻科技创新保障国家粮食安全[J]. 农业科研经济管理, 2016(2): 6-9. |
| Ying X H, Cao L Y, Hu P S, Cheng S H. Accelerate rice science and technology innovation to protect national food security[J]. Management for Economy in Agricultural Scientific Research, 2016(2): 6-9. (in Chinese with English abstract) | |
| [2] | 杜永林. 江苏省水稻品种选育利用现状与发展对策[J]. 江苏农业科学, 2010(1): 9-13. |
| Du Y L. Current situation and development counter- measures of rice variety bred and utilization in Jiangsu Province[J]. Jiangsu Agricultural Sciences, 2010(1): 9-13. (in Chinese) | |
| [3] | 鄂志国, 孙红伟, 林海, 王磊, 童汉华, 陈红旗, 朱练峰. 浙江育成和审定水稻品种分析(1980―2019)[J]. 植物遗传资源学报, 2020, 21(3): 542-548. |
| E Z G, Sun H W, Lin H, Wang L, Tong H H, Chen H Q, Zhu L F. Analysis of rice varieties bred and certi?ed in Zhejiang Province, China(1980-2019)[J]. Journal of Plant Genetic Resources, 2020, 21(3): 542-548. (in Chinese with English abstract) | |
| [4] | 杜文婷, 雷肖肖, 卢慧宇, 王云凤, 徐佳星, 罗彩霞, 张树兰. 氮肥减量施用对我国三大粮食作物产量的影响[J]. 中国农业科学, 2022, 55(24): 4863-4878. |
| Du W T, Lei X X, Lu H Y, Wang Y F, Xu J X, Luo C X, Zhang S L. Effects of reducing nitrogen application rate on the yields of three major cereals in China[J]. Scientia Agricultura Sinica, 2022, 55(24): 4863-4878. (in Chinese with English abstract) | |
| [5] | Lu Y, Jenkins A, Ferrier R C, Bailey M, Gordon I J, Song S, Huang J, Jia S, Zhang F, Liu X. Addressing China’s grand challenge of achieving food security while ensuring environmental sustainability[J]. Science Advances, 2015, 1(1): e1400039. |
| [6] | 陶小龙, 徐磊, 夏磊, 金细莲, 涂良瑛. 农业面源污染中农田氮污染对水体的危害及防治措施[J]. 农业灾害研究, 2022, 12(6): 161-163. |
| Tao X L, Xu L, Xia L, Jin X L, Tu L Y. Harm of farmland nitrogen pollution to water body in agricultural non-point source pollution and its control measures. Journal of Agricultural Catastrophology, 2022, 12(6): 161-163. (in Chinese with English abstract) | |
| [7] | Sun H, Qian Q, Wu K, Luo J, Wang S, Zhang C, Ma Y, Liu Q, Huang X, Yuan Q. Heterotrimeric G proteins regulate nitrogen-use efficiency in rice[J]. Nature Genetics, 2014, 46(6): 652. |
| [8] | 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, Chu C. Genomic basis of geographical adaptation to soil nitrogen in rice[J]. Nature, 2021, 590(7847): 600-605. |
| [9] | Tang W J, Ye J, Yao X M, Zhao P Z, Xuan W, Tian Y L, Zhang Y Y, Xu S, An H Z, Chen G M, Yu J, Wu W, Ge Y W, Liu X L, Li J, Zhang H Z, Zhao Y Q, Peng C, Zhou C, Terzaghi W, Wang C M, Wan J M. Genome-wide associated study identifies NAC42-activated nitrate transporter conferring high nitrogen use efficiency in rice[J]. Nature Communications, 2019, 10: 5279. |
| [10] | Yu J, Xuan W, Tian Y, Fan L, Sun J, Tang W, Chen G, Wang B, Liu Y, Wu W, Liu X, Jiang X, Zhou C, Dai Z, Xu D, Wang C, Wan J. Enhanced OsNLP4-OsNiR cascade confers nitrogen use efficiency by promoting tiller number in rice[J]. Plant Biotechnology Journal, 2021, 19(1): 167-176. |
| [11] | 马立珩, 张莹, 隋标, 刘彩玲, 王萍, 顾琐娣, 沈其荣, 徐茂, 郭世伟. 江苏省水稻过量施肥的影响因素分析[J]. 扬州大学学报, 2011, 32(2): 48-52. |
| Ma L H, Zhang Y, Sui B, Liu C L, Wang P, Gu S D, Shen Q R, Xu M, Guo S W. The impact factors of excessive fertilization in Jiangsu Province[J]. Journal of Yangzhou University, 2011, 32(2): 48-52. (in Chinese with English abstract) | |
| [12] | 马群, 李国业, 顾海永, 杨雄, 张洪程. 我国水稻氮肥利用现状及对策[J]. 广东农业科学, 2010, 37(11): 126. |
| Ma Q, Li G Y, Gu H Y, Yang X, Zhang H C. Current situation and countermeasures of rice nitrogen fertilizer utilization in China[J]. Guangdong Agricultural Sciences, 2010, 37(11): 126. (in Chinese) | |
| [13] | Good A G, Shrawat A K, Muench D G. Can less yield more? Is reducing nutrient input into the environment compatible with maintaining crop production?[J]. Trends in Plant Science, 2004, 9(12): 597-605. |
| [14] | 周新伟, 王建平, 陈益海, 朱勇良, 乔中英, 朱兴连, 谢裕林. 江苏省主栽粳稻品种亲本选配分析及选育策略[J]. 江苏农业科学, 2003(3): 4-7. |
| Zhou X W, Wang J P, Chen Y H, Zhu Y L, Qiao Z Y, Zhu X L, Xie Y L. Analysis of parent selection and breeding strategies for major japonica rice cultivars in Jiangsu Province[J]. Jiangsu Agricultural Sciences, 2003(3): 4-7. (in Chinese) | |
| [15] | Tang W, Lin J, Wang Y, An H, Chen H, Pan G, Zhang S, Guo B, Yu K, Li H, Fang X, Zhang Y. Selection and Validation of 48 KASP markers for variety identification and breeding guidance in conventional and hybrid rice (Oryza sativa L.)[J]. Rice (NY), 2022, 15(1): 48. |
| [16] | Huang X, Feng Q, Qian Q, Zhao Q, Wang L, Wang A, Guan J, Fan D, Weng Q, Huang T, Dong G, Sang T, Han B. High-throughput genotyping by whole-genome resequencing[J]. Genome Research, 2009, 19(6): 1068. |
| [17] | Xiao N, Pan C, Li Y, Wu Y, Cai Y, Lu Y, Wang R, Yu L, Shi W, Kang H, Zhu Z, Huang N, Zhang X, Chen Z, Liu J, Yang Z, Ning Y, Li A. Genomic insight into balancing high yield, good quality, and blast resistance of japonica rice[J]. Genome Biology, 2021, 22(1): 283. |
| [18] | Alexander D H, Shringarpure S S, Novembre J, Lange K. Admixture 1.3 Software Manual[EB/OL]. (2015-11-28) https://vcru.wisc.edu/simonlab/bioinformatics/programs/admixture/admixture-manual.pdf |
| [19] | Bradbury P J, Zhang Z, Kroon D E, Casstevens T M, Ramdoss Y, Buckler E S. TASSEL: Software for association mapping of complex traits in diverse samples[J]. Bioinformatics, 2007, 23(19): 2633-2635. |
| [20] | 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, Zuo J. The Ghd7 transcription factor represses ARE1 expression to enhance nitrogen utilization and grain yield in rice[J]. Molecular Plant, 2021, 14(6): 1012-1023. |
| [21] | Wei J, Zheng Y, Feng H, Qu H, Fan X, Yamaji N, Ma J F, Xu G. OsNRT2.4 encodes a dual-affinity nitrate transporter and functions in nitrate-regulated root growth and nitrate distribution in rice[J]. Journal of Experimental Botany, 2018, 69(5): 1095-1107. |
| [22] | Zeng D D, Qin R, Li M, Alamin M, Jin X L, Liu Y, Shi C H. The ferredoxin-dependent glutamate synthase (OsFd- GOGAT) participates in leaf senescence and the nitrogen remobilization in rice[J]. Molecular Genetics and Genomics, 2016, 292(2): 385-395. |
| [23] | 邹江石, 江祺祥. 武育粳3号的培育构思及生产表现[J]. 江苏农业科学, 1994(6): 7-9. |
| Zhou J S, Jiang Q X. Cultivation concept and production performance of Wuyujing 3[J]. Jiangsu Agricultural Sciences, 1994(6): 7-9. (in Chinese) | |
| [24] | 胡春明, 林添资, 龚红兵, 刁立平, 景德道, 盛生兰. 中粳稻镇稻88育种实践的分析与启示[J]. 江西农业学报, 2008, 20(11): 47-49. |
| Hu C M, Lin T Z, Gong H B, Diao L P, Jing D D, Sheng S L. Analysis and enlightenment on the breeding practice of mid-season japonica Zhendao 88[J]. Acta Agriculturae Universitatis Jiangxiensis, 2008, 20(11): 47-49. (in Chinese with English abstract) | |
| [25] | 任维晨, 常庆霞, 张亚军, 朱宽宇, 王志琴, 杨建昌. 不同氮利用率粳稻品种的碳氮积累与转运特征及其生理机制[J]. 中国水稻科学, 2022, 36(6): 586-600. |
| Ren W C, Chang Q X, Zhang Y J, Zhu K Y, Wang Z Q, Yang J C. Characteristics and physiological mechanism of carbon and nitrogen accumulation and translocation of japonica rice varieties differing in nitrogen use efficiency[J]. Chinese Journal of Rice Science, 2022, 36(6): 586-600. (in Chinese with English abstract) | |
| [26] | 赵凌, 张勇, 朱镇, 陈涛, 赵庆勇, 张亚东, 王才林. 南粳系列品种氮素利用效率初探[J]. 江苏农业学报, 2022, 38(5): 1153-1161. |
| Zhao L, Zhang Y, Zhu Z, Chen T, Zhao Q Y, Zhang Y D, Wang C L. Study on nitrogen use efficiency of Nanjing series japonica rice varieties[J]. Jiangsu Agricultural Sciences, 2022, 38(5): 1153-1161. (in Chinese with English abstract) | |
| [27] | Li C, Tang Z, Wei J, Qu H, Xie Y, Xu G. The OsAMT1.1 gene functions in ammonium uptake and ammonium- potassium homeostasis over low and high ammonium concentration ranges[J]. Journal of Genetics and Genomics, 2016, 43(11): 639-649. |
| [28] | Wu X, Xie X, Yang S, Yin Q, Cao H, Dong X, Hui J, Liu Z, Jia Z, Mao C J P. OsAMT1;1 and OsAMT1;2 coordinate root morphological and physiological responses to ammonium for efficient nitrogen foraging in rice[J]. Plant and Cell Physiology, 2022, 63(9): 1309. |
| [29] | Lee S, Marmagne A, Park J, Fabien C, Yim Y, Kim S J, Kim T H, Lim P O, Masclaux-Daubresse C, Nam H G J T P J. Concurrent activation of OsAMT1;2 and OsGOGAT1 in rice leads to enhanced nitrogen use efficiency under nitrogen limitation[J]. Plant Journal, 2020, 103(1): 7-20. |
| [30] | Yang G, Chen S, Chen L, Sun K, Huang C, Zhou D, Huang Y, Wang J, Liu Y, Chen Z, Guo T. Development of a core SNP arrays based on the KASP method for molecular breeding of rice[J]. Rice(NY), 2019, 12(1): 21. |
| [31] | Yang G L, Chen S P, Chen L K, Gao W W, Huang Y T, Huang C H, Zhou D H, Wang J F, Liu Y Z, Huang M, Xiao W M, Wang H, Guo T, Chen Z Q. Development and utilization of functional KASP markers to improve rice eating and cooking quality through MAS breeding[J]. Euphytica, 2019, 215(4): 254466210. |
/
| 〈 |
|
〉 |