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Acta Agronomica Sinica ›› 2022, Vol. 48 ›› Issue (3): 580-589.doi: 10.3724/SP.J.1006.2022.11015


Genetic analysis of wheat dwarf mutant je0098 and molecular mapping of dwarfing gene

FU Mei-Yu1,2(), XIONG Hong-Chun2, ZHOU Chun-Yun2, GUO Hui-Jun2, XIE Yong-Dun2, ZHAO Lin-Shu2, GU Jia-Yu2, ZHAO Shi-Rong2, DING Yu-Ping2, XU Yan-Hao1,*(), LIU Lu-Xiang2,*()   

  1. 1Hubei Collaborative Innovation Center for Grain Industry/College of Agriculture, Yangtze University, Jingzhou 434025, Hubei, China
    2Institute of Crop Sciences, Chinese Academy of Agricultural Sciences/National Key Facility for Crop Gene Resources and Genetic Improvement/National Center of Space Mutagenesis for Crop Improvement, Beijing 100081, China
  • Received:2021-02-03 Accepted:2021-06-16 Online:2022-03-12 Published:2021-06-28
  • Contact: XU Yan-Hao,LIU Lu-Xiang E-mail:17862825179@163.com;xyh09@yangtzeu.edu.cn;liuluxiang@caas.cn
  • Supported by:
    National Natural Science Foundation of China(31801346);Chinese Academy of Agricultural Sciences Basal Research Fund(Y2020YJ09);National Key Research and Development Program of China(2016YFD0102100)


Lodging easily causes severe decrease in wheat yields. Identification and utilization of favorable dwarfing genes is the key to develop new varieties with high yield and lodging resistance. In this study, a dwarf mutant je0098 as material was induced by EMS mutagenesis from Jing 411 (WT) and had fine characteristics in yield components. We mapped the dwarfing gene through genetic analysis of plant height, and combining with exon capture sequencing and genetic linkage analysis. Statistical analyses of plant height in three-year field experiment suggested that plant height of je0098 was 15 cm lower than that of WT. Histocytological analysis of je0098 and WT indicated that the internode cell length of je0098 was about 18% shorter than that of WT, suggesting that the shorter internode cell length caused the dwarfism of je0098. Gibberellic acid treatment showed that je0098 was a gibberellic acid-sensitive dwarf mutant. An F2 segregation population consisting of 344 individuals was constructed by crossing WT and je0098. Combining with the phenotypic data of F2:3 families, dwarf homozygous and tall individuals were selected to construct progeny pools. Exon capture sequencing was performed on the two parents and progeny pools, respectively. A quantitative trait locus (QTL) with effects on reduced height was identified on chromosome 2D. Based on SNPs detected by genome-wide sequencing, six KASP markers were developed on chromosome 2D to genotype F2 individuals. Genetic linkage map was constructed using QTL IciMapping. Combining with phenotype data of three-year field experiment, the dwarfing gene was mapped in the range of 20.77-28.84 Mb with genetic distance of 11.48 cM. These results will lay the foundation for further functional research of je0098 and its application in wheat breeding.

Key words: wheat, plant height, dwarf gene, BSA, molecular marker

Fig. 1

Phenotype comparison of wild type (WT) and mutant je0098 * indicates significant difference between wild type and the mutant at the 0.05 probability level; ** indicates significant difference between wild type and the mutant at the 0.01 probability level."

Fig. 2

Comparison of internode cell length and gibberellin sensitivity between wild type (WT) and mutant je0098 * indicates significant difference at the 0.05 probability level; ** indicates significant difference at the 0.01 probability level."

Table 1

Plant height of F2:3 family for two years"

Observed count (O)
Expected count (E)
(O-E)2/E χ2 P (df=1)
2019 矮秆表型 Dwarf phenotype 68 83.5 2.877 3.836 0.050
非矮秆表型 Non-dwarf phenotype 266 250.5 0.959
合计 Total 334 334.0 3.836
2020 矮秆表型 Dwarf phenotype 69 82.5 2.209 2.945 0.086
非矮秆表型 Non-dwarf phenotype 261 247.5 0.736
合计 Total 330 330.0 2.945

Fig. 3

Fitting chart of Euclidean Distance correlation analysis The red dotted horizontal line indicates the 99th percentile of the fitness value."

Fig. 4

Linkage map of QTL and its corresponding physical map on 2D chromosome Red line indicates the LOD curve identified by phenotype data from plant height of J411/je0098 F2 population in 2018, green line and blue line indicate LOD curves identified by phenotype data from average plant height of J411/je0098 F2:3 families in 2019 and 2020, respectively."

Fig. 5

Fig. S1 Comparison of agronomic traits between WT and je0098 in 2015 Thousand-kernel weight and spike length of WT and je0098 in Zhongpuchang and Changing experimental sites: (A) thousand-kernel weight; (B) spike length. ** indicates significant difference at the 0.01 probability level."

Table 2

Functional prediction of SNP loci in candidate interval"

Position (bp)
Wild type
Mutated type
Mutation type
Gene function
TraesCS2D01G059800 24,925,674 C T 错义突变
Missense mutant
RNA-binding family protein
TraesCS2D01G062900 26,616,391 C T 错义突变
Missense mutant
PHD finger protein
TraesCS2D01G052400LC 22,812,351 C T UTR突变
UTR mutant
MBOAT family protein
TraesCS2D01G053600LC 23,479,083 C T 内含子突变
Intron mutant
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