利用QTL-seq定位萝卜肉质根根形指数QTL

doi:10.3969/j.issn.1004-1524.2021.12.11

浙江农业学报 ›› 2021, Vol. 33 ›› Issue (12): 2313-2319.DOI: 10.3969/j.issn.1004-1524.2021.12.11

利用QTL-seq定位萝卜肉质根根形指数QTL

胡天华(), 魏庆镇, 汪精磊, 王五宏, 胡海娇, 严亚琴, 包崇来^*()

浙江省农业科学院蔬菜研究所,浙江杭州 310021

收稿日期:2020-06-09 出版日期:2021-12-25 发布日期:2022-01-10
通讯作者: 包崇来
作者简介:* 包崇来,E-mail: baocl@zaas.ac.cn
胡天华(1977—),男,浙江永康人,硕士,副研究员,从事蔬菜育种研究工作。E-mail: hutianh@hotmail.com
基金资助:
国家现代农业产业技术体系建设专项资金—萝卜(CARS-23-A14);浙江省基础公益研究计划(LGN19C060002)

Identification of quantitative trait loci controlling radish root index by QTL-seq

HU Tianhua(), WEI Qingzhen, WANG Jinglei, WANG Wuhong, HU Haijiao, YAN Yaqin, BAO Chonglai^*()

Institute of Vegetables, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China

Received:2020-06-09 Online:2021-12-25 Published:2022-01-10
Contact: BAO Chonglai

摘要/Abstract

摘要：

为检测萝卜肉质根根形指数相关的数量性状遗传位点(QTL),挖掘调控萝卜肉质根根形的关键基因,以肉质根根形指数差异显著的小型扁圆萝卜LLYH和大型长白萝卜CLA为亲本,杂交构建了F₂分离群体,利用QTL-seq方法对肉质根根形指数性状进行了QTL定位分析。一共检测到4个QTL位点,其中两个主效QTL位点rs2.1和rs2.2,分别位于萝卜R2号染色体21.66~26.03 Mb和30.79~36.56 Mb区域,两个微效QTL位点rs4.1和rs6.1,分别位于萝卜R4号染色体39.04~40.43 Mb和R6号染色体11.53~13.40 Mb。研究结果为开发与萝卜肉质根根形指数连锁的分子标记奠定了基础,同时为挖掘肉质根根形指数调控基因提供了重要参考。

关键词: 萝卜, 根形指数, QTL-seq, 数量性状遗传位点

Abstract:

In order to detect QTL loci and find the key genes related to radish root shape index, an F₂ population was constructed by crossing the small-sized oblate spheroidal radish LLYH and big-sized long white radish CLA which had significant differences in root shape index. QTL mapping for root shape index traits was conducted using QTL-Seq method. Four QTL loci were detected, of which two major QTL loci rs2.1 and rs2.2 were located in the 21.66-26.03 Mb and 30.79-36.56 Mb regions on chromosome R2, respectively; two minor QTL loci rs4.1 and rs6.1 were located on chromosome R4 39.04-40.43 Mb and R6 11.53-13.40 Mb.These results laid a foundation for the development of molecular markers linked to root shape index and provided an important reference for fine mapping the regulatory genes of the root shape index.

Key words: radish, root index, QTL-seq, QTL

中图分类号:

S631.1

胡天华, 魏庆镇, 汪精磊, 王五宏, 胡海娇, 严亚琴, 包崇来. 利用QTL-seq定位萝卜肉质根根形指数QTL[J]. 浙江农业学报, 2021, 33(12): 2313-2319.

HU Tianhua, WEI Qingzhen, WANG Jinglei, WANG Wuhong, HU Haijiao, YAN Yaqin, BAO Chonglai. Identification of quantitative trait loci controlling radish root index by QTL-seq[J]. Acta Agriculturae Zhejiangensis, 2021, 33(12): 2313-2319.

图/表 9

图1 生长期45 d时的母本、F1和父本的肉质根

Fig.1 Roots of female, F1, and male parents at 45 d of growth period

图2 F2群体萝卜肉质根长度分布

Fig.2 The distribution of radish root length in F2 population

图3 F2群体萝卜肉质根横径分布

Fig.3 The distribution of radish root diameter in F2 population

图4 F2群体萝卜根形指数分布

Fig.4 The distribution of radish root shape index in F2 population

表1 表型相关系数

Table 1 The phenotypic correlation coefficient

性状 Traits	肉质根长度 Root length	肉质根横径 Root diameter
肉质根横径Root diameter	-0.007	1
根形指数Root shape index	0.883	-0.448

图5 F2群体中部分极端混池单株图

Fig.5 Some extreme phenotypes of mixed pool radishes in F2 population

表2 亲本及极端池测序数据统计

Table 2 Statistics of sequencing data of parents and extreme pools

样本名称 Sample name	过滤数据量 Clean_Base	Q30/%	GC/%	比对率 Mapped/%	测序深度 Average depth	覆盖度 Cov_ratio_1X/%
LLYH	11 441 633 036	93.57	37.40	95.91	17	82.79
CLA	10 383 258 026	92.89	37.45	96.64	15	82.82
S-pool	16 119 471 526	92.59	37.50	96.02	23	90.52
L-pool	15 436 711 660	93.19	37.41	96.66	22	90.34

图6 QTL-seq检测根形指数相关QTL位点的△(SNP-index)分布图横坐标为染色体名称,彩色的点代表计算出来的Δ(SNP-index)值,黑色的线为拟合后的Δ(SNP-index)值。其中红色、蓝色和绿色的线分别代表置信度为0.99、0.95和0.90的阈值线。

Fig. 6 The △(SNP-index) distribution of the QTL loci of root shape index detected by QTL-Seq Abscissa represents chromosomes, colored dot represents calculated Δ(SNPS-index) value, the black line for fitting after Δ(SNPS-index) value. The red, blue and green lines y represent threshold lines with confidence of 0.99, 0.95 and 0.90, respectively.

表3 肉质根根形指数QTL位点信息汇总表

Table 3 Summary of QTLs detected for root shape index

数量性状位点 QTL	染色体 Chromosome	起始位置 Start	结束位置 End	区间 Interval/Mb
rs2.1	R2	21.66	26.03	4.37
rs2.2	R2	30.79	36.56	5.77
rs4.1	R4	39.04	40.43	1.39
rs6.1	R6	11.53	13.40	1.87

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利用QTL-seq定位萝卜肉质根根形指数QTL

Identification of quantitative trait loci controlling radish root index by QTL-seq

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