利用染色体片段置换系群体定位和分析水稻粒重和粒型QTL
收稿日期: 2021-02-06
修回日期: 2021-05-02
网络出版日期: 2022-03-11
基金资助
江西省杰出青年人才训练计划资助项目(20192BCB23010);江西省自然科学类重点项目(20192ACBL20017);江西省重大科技研发专项(20203ABC28W013);大学生创新创业项目(202010410105)
Mapping and Analysis of QTLs for Rice Grain Weight and Grain Shape Using Chromosome Segment Substitution Line Population
Received date: 2021-02-06
Revised date: 2021-05-02
Online published: 2022-03-11
【目的】 挖掘水稻粒重和粒型相关性状QTL,对于解析水稻籽粒遗传机理具有重要作用。【方法】 本研究以籼稻9311为受体、粳稻日本晴为供体构建的染色体片段置换系（Chromosome Segment Substitution Lines, CSSLs）群体为材料,在4个环境下对控制稻谷与糙米的粒重和粒型QTL进行了定位分析。【结果】 共检测到77个控制水稻粒重和粒型的QTL,贡献率为4.62%~51.01%,其中19个QTL的增效等位基因来自日本晴,58个QTL的增效等位基因来自9311。这些QTL分布在水稻10条染色体的46个区域,其中16个区域为多效性位点。在两个及两个以上环境中重复检测到的QTL有14个,其中qGW5.1和qLW5能够在4个环境中稳定表达,且位于同一染色体区域;qBRL3.2和qGL4.1为新鉴定的影响水稻粒重和粒型的QTL。【结论】 本研究结果为后续克隆这些QTL和解析水稻粒重和粒型遗传机理奠定了基础。
黄涛, 王燕宁, 钟奇, 程琴, 杨朦朦, 王鹏, 吴光亮, 黄诗颖, 李才敬, 余剑峰, 贺浩华, 边建民 . 利用染色体片段置换系群体定位和分析水稻粒重和粒型QTL[J]. 中国水稻科学, 2022 , 36(2) : 159 -170 . DOI: 10.16819/j.1001-7216.2021.210204
【Objective】 Mining quantitative trait loci (QTL) for grain weight and grain shape related traits in rice plays an important role in the genetic mechanism of rice grain.【Method】 QTLs associated with grain weight and grain shape of grain and brown rice were analyzed using the population of chromosome segment substitution lines (CSSLs) with indica rice 9311 as recipient and japonica Nipponbare as donor in four different environments.【Result】 A total of 77 QTLs for grain weight and grain shape of paddy and brown rice were detected, and the phenotypic variation explained by each QTL ranged from 4.62% to 51.01%. Among these QTLs, 19 have additive alleles from Nipponbare and 58 have additive alleles from 9311. These QTLs distributed in 46 regions of 10 chromosomes in rice, and 16 regions are pleiotropic loci. There are 14 QTLs that can be repeatedly detected in two or more environments, qGW5.1 and qLW5 could be repeatedly detected in four environments and were located in the same chromosome region; qBRL3.2 and qGL4.1 were newly identified QTLs affecting grain weight and grain shape in rice.【Conclusion】 The results laid a foundation for cloning these QTLs and analyzing the genetic mechanism of grain shape and grain weight in rice.
Key words： rice; chromosome segment substitution lines (CSSLs); grain weight; grain shape; QTL
| [1] | Bai X, Luo L, Yan W, Kovi M R, Zhan W, Xing Y. Genetic dissection of rice grain shape using a recombinant inbred line population derived from two contrasting parents and fine mapping a pleiotropic quantitative trait locus qGL7[J]. BMC Genetics, 2010,11(1):16. |
| [2] | Xing Y, Zhang Q. Genetic and molecular bases of rice yield[J]. Annual Review of Plant Biology, 2010,61(1):421-442. |
| [3] | 袁隆平. 中国的杂交水稻[J]. 中国水稻科学, 1986,1(1):18. |
| [3] | Yuan L P. Hybrid rice in China[J]. Chinese Journal of Rice Science, 1986,1(1):8-18. (in Chinese with English abstract) |
| [4] | 康雪蒙, 马梦影, 巩文靓, 段海燕. 水稻粒型基因研究进展及应用[J]. 农学学报, 2020,10(12):21-25. |
| [4] | Kang X M, Ma M Y, Gong W J, Duan H Y. Rice grain shape genes: Research progress and application[J]. Journal of Agriculture, 2020,10(12):21-25. (in Chinese with English abstract) |
| [5] | Huang R Y, Jiang L R, Zheng J S, Wang T S, Wang H C, Huang Y M, Hong Z L. Genetic bases of rice grain shape: so many genes, so little known[J]. Trends in Plant Science, 2013,18(4):218-226. |
| [6] | 张波, 裴瑞琴, 杨维丰, 朱海涛, 刘桂富, 张桂权, 王少奎. 利用单片段代换系鉴定巴西陆稻IAPAR9中的水稻粒型基因[J]. 作物学报, 2021,47(1):1472-1480. |
| [6] | Zhang B, Pei R Q, Yang W F, Zhu H T, Liu G F, Zhang G Q, Wang S K. Mapping and identification QTL controlling grain size in rice (Oryza sativa L.) by using single segment substitution lines derived from IAPAR9[J]. Acta Agronomica Sinica, 2021,47(1):1472-1480. (in Chinese with English abstract) |
| [7] | 孙滨, 占小登, 林泽川, 高志强, 于萍, 刘群恩, 沈希宏, 张迎信, 陈代波. 水稻粒形和粒重性状的相关性分析及QTL定位[J]. 分子植物育种, 2015,13(12):2663-2672. |
| [7] | Sun B, Zhan X D, Lin Z C, Gao Z Q, Yu P, Liu Q E, Shen X H, Zhang Y X, Chen D B. Correlation analysis and QTL mapping of grain shape and grain weight in rice[J]. Molecular Plant Breeding, 2015,13(12):2663-2672. (in Chinese with English abstract) |
| [8] | 郑跃滨, 李智, 赵海燕, 朱光枫, 廖芷依, 竺正航, 王兰. 水稻粒长QTL定位与主效基因的遗传分析[J]. 西北植物学报, 2020,40(4):598-604. |
| [8] | Zheng Y B, Li Z, Zhao H Y, Zhu G F, Liao Z Y, Zhu Z H, Wang L. Mapping quantitative trait loci associated with grain length and genetic analysis of major quantitative loci in rice[J]. Acta Botanica Boreali-Occidentalia Sinica, 2020,40(4):598-604. (in Chinese with English abstract) |
| [9] | 姚国新, 李金杰, 张强, 胡广隆, 陈超, 汤波, 张洪亮, 李自超. 利用4个姊妹近等基因系群体定位水稻粒重和粒形QTL[J]. 作物学报, 2010,36(8):1310-1317. |
| [9] | Yao G X, Li J J, Zhang Q, Hu G L, Chen C, Shang B, Zhang H L, Li Z C. Mapping QTL for grain weight and shape using four sisters near isogenic lines in rice (Oryza sativa L.)[J]. Acta Agronomica Sinica, 2010,36(8):1310-1317. (in Chinese with English abstract) |
| [10] | 谭耀鹏, 李兰芝, 李平, 王玲霞, 胡中立. 利用DH群体定位水稻谷粒外观性状的QTL[J]. 分子植物育种, 2005,3(3):314-322. |
| [10] | Tan Y P, Li L Z, Li P, Wang L X, Hu Z L. Quantitative trait loci for grain appearance traits of rice using a doubled haploid population[J]. Molecular Plant Breeding, 2005,3(3):314-322. (in Chinese with English abstract) |
| [11] | 康艺维, 陈玉宇, 张迎信. 水稻粒型基因克隆研究进展及育种应用展望[J]. 中国水稻科学, 2020,34(6):479-490. |
| [11] | Kang Y W, Chen Y Y, Zhang Y X. Research progress and breeding prospects of grain size associated genes in rice[J]. Chinese Journal of Rice Science, 2020,34(6):479-490. (in Chinese with English abstract) |
| [12] | Yan S, Zou G, Li S, Wang H, Liu H, Zhai G, Guo P, Song H, Yan C, Tao Y. Seed size is determined by the combinations of the genes controlling different seed characteristics in rice[J]. Theoretical and Applied Genetics, 2011,123(7):1173-1181. |
| [13] | Liu Q, Han R, Wu K, Zhang J, Ye Y, Wang S, Chen J, Pan Y, Li Q, Xu X, Zhou J, Tao D, Wu Y, Fu X. G-protein βγ subunits determine grain size through interaction with MADS-domain transcription factors in rice[J]. Nature Communications, 2018,9(1):852. |
| [14] | Ishimaru K, Hirotsu N, Madoka Y, Murakami N, Hara N, Onodera H, Kashiwagi T, Ujiie K, Shimizu B I, Onishi A, Miyagawa H, Katoh E. Loss of function of the IAA-glucose hydrolase gene TGW6 enhances rice grain weight and increases yield[J]. Nature Genetics, 2013,45(6):707-711. |
| [15] | Song X J, Kuroha T, Ayano M, Ashikari M. Rare allele of a previously unidentified histone H4 acetyltransferase enhances grain weight, yield, and plant biomass in rice[J]. Proceedings of the National Academy of Sciences of the United States of America, 2015,112(1):76. |
| [16] | Huang K, Wang D, Duan P, Zhang B, Xu R, Li N, Li Y. WIDE AND THICK GRAIN 1, which encodes an otubain- like protease with deubiquitination activity, influences grain size and shape in rice. Plant Journal, 2017,91(5):849-860. |
| [17] | Wang Y. Copy number variation at the GL7 locus contributes to grain size diversity in rice. Nature Genetics, 2015,47(8):944-948. |
| [18] | Wan X Y, Wan J M, Weng J F, Jiang L, Bi J C, Wang C M, Zhai H Q. Stability of QTL for rice grain dimension and endosperm chalkiness characteristics across eight environments. Theoretical and Applied Genetics, 2005,110(7):1334-1346. |
| [19] | Wu G L, Deng H D, Yu M X, Cai Y C, Zhou D H, Tan J A, Yu J F, Luo X, Tong S, Wang P, Zhang X Y, Li C J, Li C J, Wang Y N, Cheng Q, He H H, Bian J M. Genetic analysis of rice seed recovery under low-temperature conditions using a new CSSL population with a high-density genetic map in rice. Molecular Breeding, 2020,40(12):109. |
| [20] | McCouch S R. Gene nomenclature system for rice. Rice, 2008,1(1):72-84. |
| [21] | Jang S, An G, Li H Y. Rice leaf angle and grain size are affected by the OsBUL1 transcriptional activator complex. Plant Physiology, 2017,173(1):688-702. |
| [22] | Hu J, Wang Y, Fang Y, Zeng L, Xu J, Yu H, Shi Z, Pan J, Zhang D, Kang S, Zhu L, Dong G, Guo L, Zeng D, Zhang G, Xie L, Xiong G, Li J, Qian Q. A rare allele of GS2 enhances grain size and grain yield in rice. Molecular Plant, 2015,8(10):1455-1465. |
| [23] | Heang D, Sassa H. Antagonistic actions of HLH/bHLH proteins are involved in grain length and weight in rice. PLoS One, 2012,7(2):e31325. |
| [24] | Wu W, Liu X Y, Wang M H, Meyer R S, Ndjiondjop M N, Tan L B, Zhang J W, Wu J Z, Cai H W, Sun C Q, Wang X K, Wing R A, Zhu Z F. A single-nucleotide polymorphism causes smaller grain size and loss of seed shattering during African rice domestication. Nature Plants, 2017,3(6):17064. |
| [25] | Wang S, Li S, Liu Q, Wu K, Zhang J, Wang S, Engineering I O, Wang Y, Chen X, Zhang Y, Gao C, Wang F, Huang H, Fu X. The OsSPL16-GW7 regulatory module determines grain shape and simultaneously improves rice yield and grain quality[J]. Nature Genetics, 2015,47(8):949-954. |
| [26] | Wang S, Wu K, Yuan Q, Liu X, Liu Z, Lin X, Zeng R, Zhu H, Dong G, Qian Q, Zhang G, Fu X. Control of grain size, shape and quality by OsSPL16 in rice[J]. Nature Genetics, 2012,44(8):950-954. |
| [27] | 王小雷, 李炜星, 曾博虹, 孙晓棠, 欧阳林娟, 陈小荣, 贺浩华, 朱昌兰. 基于染色体片段置换系对水稻粒形及千粒重QTL检测与稳定性分析[J]. 作物学报, 2020,46(10):1517-1525. |
| [27] | Wang X L, Li H X, Zeng B H, Sun X T, OuYang L J, Chen X R, He H H, Zhu C L. QTL detection and stability analysis of rice grain shape and thousand-grain weight based on chromosome segment substitution lines[J]. Acta Agronomica Sinica, 2020,46(10):1517-1525. (in Chinese with English abstract) |
| [28] | Xia D, Zhou H, Liu R. GL3.3, a novel QTL encoding a GSK3/SHAGGY-like kinase, epistatically interacts with GS3 to form extra-long grains in rice[J]. Molecular Plant, 2018,11(5):754-756. |
| [29] | Fan C, Xing Y, Mao H, Lu T, Han B, Xu C, Li X, Zhang Q. GS3, a major QTL for grain length and weight and minor QTL for grain width and thickness in rice, encodes a putative transmembrane protein[J]. Theoretical & Applied Genetics, 2006,112(6):1164-1171. |
| [30] | Ma X, Cheng Z, Qin R, Qiu Y, Heng Y, Yang H, Ren Y, Wang X, Bi J, Ma X, Zhang X, Wang J, Lei C, Guo X, Wang J, Wu F, Jiang L, Wang H, Wan J. OsARG encodes an arginase that plays critical roles in panicle development and grain production in rice[J]. Plant Journal, 2013,73(2):190-200. |
| [31] | Kesavan M, Song J T, Seo H S. Seed size: A priority trait in cereal crops[J]. Physiologia Plantarum, 2013,147(2):113-120. |
| [32] | Xu F, Fang J, Ou S, Gao S, Zhang F, Du L, Xiao Y, Wang H, Sun X, Chu J, Wang G, Chu C. Variations in CYP78A13 coding region influence grain size and yield in rice[J]. Plant Cell & Environment, 2015,38(4):800-811. |
| [33] | Kang Y J, Shim K C, Lee H S, Jeon Y A, Kim S H, Kang J W, Yun Y T, Park I K, Ahn S N. Fine mapping and candidate gene analysis of the quantitative trait locus gw8.1 associated with grain length in rice[J]. Genes & Genomics, 2018,40(4):389-397. |
| [34] | Wang Z, Chen J Y, Zhu Y J. Validation of qGS10, a quantitative trait locus for grain size on the long arm of chromosome 10 in rice(Oryza sativa L.)[J]. Journal of Integrative Agriculture, 2017,16(1):16-26. |
/
| 〈 |
|
〉 |