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作物学报 ›› 2020, Vol. 46 ›› Issue (8): 1174-1184.doi: 10.3724/SP.J.1006.2020.92066

• 作物遗传育种·种质资源·分子遗传学 • 上一篇    下一篇

基于高密度SNP遗传图谱的粳稻芽期耐低温QTL鉴定

姜树坤1,*(),王立志1,杨贤莉1,李波2,母伟杰3,董世晨3,车韦才3,李忠杰1,迟力勇1,李明贤1,张喜娟1,姜辉2,李锐1,赵茜1,李文华2,*()   

  1. 1黑龙江省农业科学院耕作栽培研究所/黑龙江省寒地作物生理生态重点实验室/黑龙江省农作物低温冷害工程技术研究中心, 黑龙江哈尔滨 150086
    2黑龙江省农业科学院, 黑龙江哈尔滨 150086
    3哈尔滨师范大学生命科学与技术学院, 黑龙江哈尔滨 150025
  • 收稿日期:2019-12-08 接受日期:2020-03-24 出版日期:2020-08-12 网络出版日期:2020-04-10
  • 通讯作者: 姜树坤,李文华
  • 作者简介:E-mail: sk_jiang@126.com
  • 基金资助:
    国家重点研发计划项目(2018YFD0300105-5-2);国家自然科学基金项目(31661143012);国家重点研发项目黑龙江省级资助(768001);黑龙江省自然科学基金优秀青年基金项目(YQ2019C020);黑龙江省农业科学院长期性基础性项目(2018CQJC002);黑龙江省农业科学院长期性基础性项目(2019CQJC002)

Detection of QTLs controlling cold tolerance at bud bursting stage by using a high-density SNP linkage map in japonica rice

JIANG Shu-Kun1,*(),WANG Li-Zhi1,YANG Xian-Li1,LI Bo2,MU Wei-Jie3,DONG Shi-Chen3,CHE Wei-Cai3,LI Zhong-Jie1,CHI Li-Yong1,LI Ming-Xian1,ZHANG Xi-Juan1,JIANG Hui2,LI Rui1,ZHAO Qian1,LI Wen-Hua2,*()   

  1. 1Institute of Crop Cultivation and Tillage, Heilongjiang Academy of Agricultural Sciences/Heilongjiang Provincial Key Laboratory of Crop Physiology and Ecology in Cold Region/Heilongjiang Provincial Engineering Technology Research Center of Crop Cold Damage, Harbin 150086, Heilongjiang, China
    2Heilongjiang Academy of Agricultural Sciences, Harbin 150086, Heilongjiang, China
    3Life Science and Technology College, Harbin Normal University, Harbin 150025, Heilongjiang, China
  • Received:2019-12-08 Accepted:2020-03-24 Published:2020-08-12 Published online:2020-04-10
  • Contact: Shu-Kun JIANG,Wen-Hua LI
  • Supported by:
    National Key Research and Development Program of China(2018YFD0300105-5-2);National Natural Science Foundation of China(31661143012);Provincial Funding for the National Key Research and Development Program in Heilong jiang Province(768001);Natural Science Foundation of Heilongjiang Province of China(YQ2019C020);Heilongjiang Province Agricultural Science and Technology Innovation Project(2018CQJC002);Heilongjiang Province Agricultural Science and Technology Innovation Project(2019CQJC002)

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摘要：

水稻直播由于省时、省工和节约成本而备受农户关注。然而, 芽期耐冷性不强致使现行推广的许多优良水稻品种不适于直播生产。因此, 挖掘鉴定芽期耐冷位点, 为后续的辅助育种提供基因资源就日益受到重视。本研究利用丽江新团黑谷和沈农265构建的重组自交系群体及其重测序构建的包含2818个bin标记的遗传图谱对水稻芽期的耐冷性进行QTL定位分析。共检测到5个芽期耐冷QTL, 分布在水稻的1号、3号、9号和11号染色体上, 增效等位基因均来自耐冷亲本丽江新团黑谷。这些QTL的LOD值的范围从3.05到24.01, 表型贡献率为8.0%~53.5%。其中, 表型贡献率最大的主效QTL是qCTB11b, 位于11号染色体长臂端的21.24 Mb~22.03 Mb之间, 物理图谱区间为790 kb。随后利用“选择作图”的策略进行了QTL验证和累加效应分析, 明确了可以通过QTL的累加聚合实现芽期耐冷能力的遗传改良, 聚合的增效QTL越多, 耐冷能力提升越明显。上述研究结果不仅可以增强人们对芽期水稻耐冷能力遗传基础的认识和理解, 也可以为后续直播品种的遗传改良提供理论依据和技术指导。

关键词: 粳稻, 芽期耐冷性, 重测序, 遗传图谱, 数量性状基因座

Abstract:

Direct seeded rice (DSR) has received much attention because of its time- and labour-saving and low-input demand. However, the long-term cultivation method of seedling-transplantation has led to loss of some low-temperature-tolerant genes expressed at the bud stage. It has made many currently popular rice varieties unsuitable for direct seeding production. Therefore, it is important to identify cold-tolerance genes at the bud stage and to provide genes for subsequent molecular marker assistant breeding. In this study, we used a recombinant inbred line population constructed by cross of Lijiangxintuanheigu (LTH) and Shennong 265 (SN265) and its linkage map containing 2818 markers to detect cold tolerance QTLs at the bud stage. A total of five QTLs were detected on rice chromosomes 1, 3, 9, and 11. All the cold tolerance alleles were from the cold-tolerant parent LTH. The LOD values of these QTLs ranged from 3.05 to 24.01, and the phenotypic variations ranged from 8.0% to 53.5%. Among them, the major QTL qCTB11b was located in a 790 kb interval of 21.24 Mb to 22.03 Mb on the long arm of chromosome 11. Subsequently, the “selective mapping” strategy was used for QTL verification and pyramiding effect analysis. Genetic improvement of cold tolerance at the bud stage would be achieved through pyramiding more QTLs. These results not only promote people’s understanding of the genetic basis for cold tolerance at the bud stage in rice but also provide theoretical basis and technical guidance for genetic improvement of DSR varieties.

Key words: japonica rice, cold tolerance at bud bursting stage, re-sequencing, genetic map, QTLs

图1

丽江新团黑谷-沈农265重组自交系群体的物理图谱(A)和基因型(B) 物理图谱位置基于日本晴参考基因组(MSU Rice Genome Annotation Project Release 7), 黄色表示沈农265; 蓝色表示丽江新团黑谷。"

图2

水稻芽期冷害评价等级标准"

图3

亲本丽江新团黑谷和沈农265芽期不经冷处理(A)和冷处理后(B)的比较"

图4

重组自交系群体的芽期耐冷性分布"

表1

利用丽江新团黑谷-沈农265的重组自交系群体检测的芽期耐冷QTL信息"

数量性状
基因座
QTL		 染色体
Chr.		 峰值位置a
Peak pos.a		 峰值标记
Peak marker		 QTL区间QTL interval LOD值
LOD value		 表型贡献率
Var. (%)		 加性
效应
Add.		 增效等位
基因来源
Positive
allele
物理图谱
Physical (Mb)		 定位区间
Location
interval (Mb)
qCTB1 1 0.73 Bin01-002 0.43-0.93 0.50 3.26 8.20 0.22 LTH
qCTB3 3 29.40 Bin03-281 29.40-32.87 3.47 3.05 8.00 0.21 LTH
qCTB9 9 21.45 Bin09-185 19.90-22.30 2.40 5.36 16.60 0.34 LTH
qCTB11a 11 9.71 Bin11-087 8.53-9.93 1.40 8.58 24.10 0.39 LTH
qCTB11b 11 21.80 Bin11-141 21.24-22.03 0.79 24.01 53.50 0.64 LTH

图5

控制芽期耐冷性的QTL在染色体上的位置分布 OsCOIN: 低温诱导的锌指蛋白[46]; OsHOS1: 参与冷胁迫的E3泛素连接酶[47]; OsDREB1A, OsDREB1B: 低温诱导的AP2/ EREBP转录因子基因[48]; qCTP11: 芽期耐冷QTL[27]。"

图6

芽期耐冷QTL的验证和聚合效应分析使用的重组单株基因型 “-”: 缺失。"

图7

控制芽期耐冷性的QTL效应及在LTH-SN265重组自交系群体中的聚合效果分析 A: 亲本沈农265 (SN265); B: 亲本丽江新团黑谷(LTH); C~G: qCTB1、qCTB3、qCTB9、qCTB11a和qCTB11b的芽期耐冷效应; H: qCTB1和qCTB3的芽期耐冷聚合效应; I: qCTB3和qCTB9的芽期耐冷聚合效应; J: qCTB9和qCTB11a的芽期耐冷聚合效应; K: qCTB11a和qCTB11b的芽期耐冷聚合效应; L: qCTB1和qCTB11b的芽期耐冷聚合效应; M: qCTB9和qCTB11b的芽期耐冷聚合效应; N: qCTB1、qCTB3和qCTB9的芽期耐冷聚合效应; O: qCTB3、qCTB9和qCTB11a的芽期耐冷聚合效应; P: qCTB1、qCTB3和qCTB11a的芽期耐冷聚合效应; Q: qCTB1、qCTB11a和qCTB11b的芽期耐冷聚合效应; R: qCTB3、qCTB11a和qCTB11b的芽期耐冷聚合效应; S: qCTB9、qCTB11a和qCTB11b的芽期耐冷聚合效应; T: qCTB1、qCTB3、qCTB11a和qCTB11b的芽期耐冷聚合效应; U: qCTB1、qCTB9、qCTB11a和qCTB11b的芽期耐冷聚合效应; V: qCTB3、qCTB9、qCTB11a和qCTB11b的芽期耐冷聚合效应; W: qCTB1、qCTB3、qCTB9、qCTB11a和qCTB11b的芽期耐冷聚合效应; X: 无QTL的株系表型。"

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