矮格拉/徐稻10号DH群体的SNP标记图谱构建及耐盐QTL定位分析
收稿日期: 2025-06-10
修回日期: 2025-12-15
网络出版日期: 2026-05-13
基金资助
国家现代农业产业技术体系项目(CARS-01-97);生物育种钟山实验室项目(ZSBBL-KY2024-01);江苏省自然科学基金面上项目(BK20221276);江苏省种业振兴揭榜挂帅项目(JBGS〔2021〕043);连云港市财政专项(QNJJ2411)
Construction of a SNP-Based Genetic Map and QTL Mapping for Salt Tolerance in a Rice DH Population Derived from Aigela and Xudao 10
Received date: 2025-06-10
Revised date: 2025-12-15
Online published: 2026-05-13
【目的】土壤盐碱化是一个影响我国农业生产的重要非生物胁迫因素，挖掘水稻耐盐相关性状基因/QTL对保障盐碱地水稻的安全生产至关重要。【方法】以耐盐性差异较大的矮格拉和徐稻10号为亲本构建定位群体，利用田间和室内水培进行耐盐性鉴定，利用水稻1 K mGPS SNP芯片对定位群体进行基因分型，结合表型数据和基因型数据，利用QTL IciMapping 4.2软件进行QTL定位。【结果】通过QTL定位分析，最终鉴定出22个耐盐相关QTL，其中单株产量QTL 10个，每穗粒数QTL 4个，根长QTL 2个，根干质量QTL 6个，这些QTL位于水稻1、6、8、10、11和12号染色体上，LOD值为4.04~9.65，表型贡献率为3.37%~15.52%。根据新发现QTL(qST11)定位区间内的基因注释、与拟南芥的同源基因比对、时空表达分析和序列分析，最终筛选到1个编码羟基类固醇脱氢酶的候选基因LOC_Os11g30560 (OsHSD1)。【结论】在本研究检测到的22个QTL中，11个为已知耐盐性基因位点，11个是新鉴定位点。同时，本研究对新鉴定耐盐QTL(qST11)进行了候选基因分析，为进一步开展耐盐基因的克隆和遗传调控的解析奠定了基础。
刘艳, 李景芳, 迟铭, 章雨沁, 孙志广, 李健, 杨波, 徐波, 邢运高, 周群, 王德荣, 陈庭木, 刘金波, 卢百关, 徐大勇, 王宝祥 . 矮格拉/徐稻10号DH群体的SNP标记图谱构建及耐盐QTL定位分析[J]. 中国水稻科学, 2026 , 40(3) : 351 -359 . DOI: 10.16819/j.1001-7216.2026.250604
【Objective】Soil salinization is an important abiotic factor affecting agricultural production in China, and the identification of salt tolerance-related genes/QTLs in rice is crucial for ensuring stable rice production in saline-alkali soils. 【Method】Aigela and Xudao 10, which exhibit significant differences in salt tolerance related traits, were used as parent plants to create a doubled haploid (DH) population. Salt tolerance was identified under field and hydroponic conditions. Genotyping of the targeted population was performed using the rice 1 K mGPS SNP chip. Phenotypic data combined with genotype data of DH population were used for QTL mapping with the QTL IciMapping 4.2 software. 【Result】Through QTL mapping analysis, a total of 22 salt tolerance related QTLs were detected, including 10 QTLs for grain yield per plant, 4 for grains per panicle, 2 for root length, and 6 for root dry weight. These QTLs are located on chromosomes 1, 6, 8, 10, 11, and 12, explaining phenotypic variation of 3.37%−15.52% with LOD values ranging from 4.04 to 9.65. Based on the gene annotation, Arabidopsis homologous gene comparison, spatiotemporal expression analysis and sequence comparison within the mapping interval of qST11, a candidate gene (LOC_Os11g30560) encoding a hydroxysteroid dehydrogenase (OsHSD1) was identified. 【Conclusion】Among the 22 QTLs detected in this study, 11 were known genes or loci related to salt tolerance, and the remaining 11 were newly identified. Meanwhile, the candidate gene analysis was conducted on the newly identified salt tolerance QTL (qST11), laying a foundation for cloning of salt-tolerance related genes and deciphering their genetic regulatory networks.
| [1] | 李景芳, 温舒越, 赵利君, 陈庭木, 周振玲, 孙志广, 刘艳, 陈海元, 张云辉, 迟铭, 邢运高, 徐波, 徐大勇, 王宝祥. 基于CRISPR/Cas9技术创制耐盐香稻[J]. 中国水稻科学, 2023, 37(5): 478-485. |
| Li J F, Wen S Y, Zhao L J, Chen T M, Zhou Z L, Sun Z G, Liu Y, Chen H Y, Zhang Y H, Chi M, Xing Y G, Xu B, Xu D Y, Wang B X. Development of aromatic salt-tolerant rice based on CRISPR/Cas9 technology[J]. Chinese Journal of Rice Science, 2023, 37(5): 478-485. (in Chinese with English abstract) | |
| [2] | Yuan H, Cheng M, Wang R, Wang Z, Fan F, Wang W, Si F, Gao F, Li S. miR396b/GRF6 module contributes to salt tolerance in rice[J]. Plant Biotechnology Journal, 2024, 22(8): 2079-2092. |
| [3] | Xie T, Xu J, Hu W, Shan S, Gao H, Shen J, Chen X, Jia Y, Gao X, Huang J, Zhang H, Cheng J. OsAAH confers salt tolerance in rice seedlings[J]. The Plant Journal, 2024, 120(5): 1954-1968. |
| [4] | Hasanuzzaman M, Fujita M. Plant responses and tolerance to salt stress: Physiological and molecular interventions[J]. International Journal of Molecular Sciences, 2022, 23(9): 4810. |
| [5] | 韦还和, 马唯一, 左博源, 汪璐璐, 朱旺, 耿孝宇, 张翔, 孟天瑶, 陈英龙, 高平磊, 许轲, 霍中洋, 戴其根. 盐、干旱及其复合胁迫对水稻产量和品质形成影响的研究进展[J]. 中国水稻科学, 2024, 38(4): 350-363. |
| Wei H H, Ma W Y, Zuo B Y, Wang L L, Zhu W, Geng X Y, Zhang X, Meng T Y, Chen Y L, Gao P L, Xu K, Huo Z Y, Dai Q G. Research progress in the effect of salinity, drought, and their combined stresses on rice yield and quality formation[J]. Chinese Journal of Rice Science, 2024, 38(4): 350-363. (in Chinese with English abstract) | |
| [6] | Jian G, Mo Y, Hu Y, Huang Y, Ren L, Zhang Y, Hu H, Zhou S, Liu G, Guo J, Ling Y. Variety-specific transcriptional and alternative splicing regulations modulate salt tolerance in rice from early stage of stress[J]. Rice, 2022, 15(1): 56. |
| [7] | Chen G, Hu K, Zhao J, Guo F, Shan W, Jiang Q, Zhang J, Guo Z, Feng Z, Chen Z, Wu X, Zhang S, Zuo S. Genome-wide association analysis for salt-induced phenotypic and physiologic responses in rice at seedling and reproductive stages[J]. Frontiers in Plant Science, 2022, 13: 822618. |
| [8] | Xiao F, Zhou H. Plant salt response: Perception, signaling, and tolerance[J]. Frontiers in Plant Science, 2023, 13: 1053699. |
| [9] | Wang X, Li J, Sun J, Gu S, Wang J, Su C, Li Y, Ma D, Zhao M, Chen W. Mining beneficial genes for salt tolerance from a core collection of rice landraces at the seedling stage through genome-wide association mapping[J]. Frontiers in Plant Science, 2022, 13: 847863. |
| [10] | 程怡冰, 黄倩, 韩冰, 崔迪, 邱先进, 马小定, 韩龙植. 利用东乡普通野生稻染色体片段置换系定位水稻苗期耐盐性QTL[J]. 植物遗传资源学报, 2024, 25(8): 1245-1253. |
| Cheng Y B, Huang Q, Han B, Cui D, Qiu X J, Ma X D, Han L Z. QTLs analysis for salinity tolerance at seedling stage using chromosome segment substitution lines of Dongxiang common wild rice (Oryza rufipogon Griff.)[J]. Journal of Plant Genetic Resources, 2024, 25(8): 1245-1253. (in Chinese with English abstract) | |
| [11] | 许睿, 张莉珍, 谢先芝, 王艳艳, 黄婧芬, 郑晓明, 张丽芳, 程云连, 郑崇珂, 乔卫华, 杨庆文. 基于染色体置换系的普通野生稻耐盐性QTL定位[J]. 植物遗传资源学报, 2020, 21(2): 442-451. |
| Xu R, Zhang L Z, Xie X Z, Wang Y Y, Huang J F, Zheng X M, Zhang L F, Cheng Y L, Zheng C K, Qiao W H, Yang Q W. QTL mapping revealed salt tolerance traits from Oryza rufipogon using chromosome segment substitution lines[J]. Journal of Plant Genetic Resources, 2020, 21(2): 442-451. (in Chinese with English abstract) | |
| [12] | 黎明辉, 朱士伦, 李彪, 于百洋, 贾佩陇, 罗继景. 基于水稻染色体片段代换系的耐盐发芽QTL分析[J]. 基因组学与应用生物学, 2021, 40(2): 720-725. |
| Li M H, Zhu S L, Li B, Yu B Y, Jia P L, Luo J J. QTL analysis of high salt tolerance at budding stage in rice based on chromosome segment substitution lines[J]. Genomics and Applied Biology, 2021, 40(2): 720-725. (in Chinese with English abstract) | |
| [13] | De Leon T B, Linscombe S, Subudhi P K. Molecular dissection of seedling salinity tolerance in rice (Oryza sativa L.) using a high-density GBS-based SNP linkage map[J]. Rice, 2016, 9(1): 52. |
| [14] | Wang Z, Cheng J, Chen Z, Huang J, Bao Y, Wang J, Zhang H. Identification of QTLs with main, epistatic and QTL × environment interaction effects for salt tolerance in rice seedlings under different salinity conditions[J]. Theoretical and Applied Genetics, 2012, 125(4): 807-815. |
| [15] | Nayyeripasand L, Ali Garoosi G, Ahmadikhah A. Genome-wide association study (GWAS) to identify salt-tolerance QTLs carrying novel candidate genes in rice during early vegetative stage[J]. Rice, 2021, 14(1): 9. |
| [16] | Geng L, Zhang W, Zou T, Du Q, Ma X, Cui D, Han B, Zhang Q, Han L. Integrating linkage mapping and comparative transcriptome analysis for discovering candidate genes associated with salt tolerance in rice[J]. Frontiers in Plant Science, 2023, 14: 1065334. |
| [17] | Ganapati R K, Naveed S A, Zafar S, Wang W, Xu J. Saline-alkali tolerance in rice: Physiological response, molecular mechanism, and QTL identification and application to breeding[J]. Rice Science, 2022, 29(5): 412-434. |
| [18] | Wei H, Wang X, Zhang Z, Yang L, Zhang Q, Li Y, He H, Chen D, Zhang B, Zheng C, Leng Y, Cao X, Cui Y, Shi C, Liu Y, Lv Y, Ma J, He W, Liu X, Xu Q, Yuan Q, Yu X, Wang T Qian H, Li X, Zhang B, Zhang H, Chen W, Guo M, Dai X, Wang Y, Zheng X, Guo L, Xie X, Qian Q, Shang L. Uncovering key salt-tolerant regulators through a combined eQTL and GWAS analysis using the super pan-genome in rice[J]. National Science Review, 2024, 11(4): nwae043. |
| [19] | Quan R, Wang J, Hui J, Bai H, Lyu X, Zhu Y, Zhang H, Zhang Z, Li S, Huang R. Improvement of salt tolerance using wild rice genes[J]. Frontiers in Plant Science, 2018, 8: 2269. |
| [20] | Kurotani K I, Hayashi K, Hatanaka S, Toda Y, Ogawa D, Ichikawa H, Ishimaru Y, Tashita R, Suzuki T, Ueda M, Hattori T, Takeda S. Elevated levels of CYP94 family gene expression alleviate the jasmonate response and enhance salt tolerance in rice[J]. Plant & Cell Physiology, 2015, 56(4): 779-789. |
| [21] | Wang X, He Y, Wei H, Wang L. A clock regulatory module is required for salt tolerance and control of heading date in rice[J]. Plant, Cell & Environment, 2021, 44(10): 3283-3301. |
| [22] | Opassiri R, Pomthong B, Akiyama T, Nakphaichit M, Onkoksoong T, Ketudat Cairns M, Ketudat Cairns J R. A stress-induced rice (Oryza sativa L.) beta-glucosidase represents a new subfamily of glycosyl hydrolase family 5 containing a fascin-like domain[J]. The Biochemical Journal, 2007, 408(2): 241-249. |
| [23] | Zhang Z, Cheng Z J, Gan L, Zhang H, Wu F Q, Lin Q B, Wang J L, Wang J, Guo X P, Zhang X, Zhao Z C, Lei C L, Zhu S S, Wang C M, Wan J M. OsHSD1, a hydroxysteroid dehydrogenase, is involved in cuticle formation and lipid homeostasis in rice[J]. Plant Science, 2016, 249: 35-45. |
| [24] | Chu Z, Wang H, Wang Y, Chang S, Jia S, Pang L, Xi C, Liu J, Zhao H, Zhou X, Han S, Wang Y. OsHSD2 interaction with and phosphorylation by OsCPK21 is essential for lipid metabolism during rice caryopsis development[J]. Journal of Plant Physiology, 2022, 274: 153714. |
| [25] | Li F, Asami T, Wu X, Tsang E W T, Cutler A J. A putative hydroxysteroid dehydrogenase involved in regulating plant growth and development[J]. Plant Physiology, 2007, 145(1): 87-97. |
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