Scientia Agricultura Sinica ›› 2026, Vol. 59 ›› Issue (14): 3006-3021.doi: 10.3864/j.issn.0578-1752.2026.14.002

• CROP GENETICS & BREEDING·GERMPLASM RESOURCES·MOLECULAR GENETICS • Previous Articles     Next Articles

Evaluation of Rust Resistance in the Seedling Stage of Wheat Varieties and Disease-Resistant Gene Detection in Shanxi Province, China

MAO JiaQi1,2(), WU BangBang1, ZHAO JiaJia1, HAO YuQiong1, ZHENG XingWei1, WU JianHui4, ZENG QingDong4, LIU MinJie3(), ZHENG Jun1()   

  1. 1 Institute of Wheat Research, Shanxi Agriculture University/Key Laboratory of Sustainable Dryland Agriculture (Co-construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, Linfen 041000, Shanxi
    2 College of Agriculture, Shanxi Agricultural University, Jinzhong 030801, Shanxi
    3 College of Plant Protection, Shanxi Agricultural University/Key Laboratory of Agricultural Integrated Pest Management in Shanxi, Taiyuan 030031
    4 College of Plant Protection, Northwest A&F University, Yangling 712100, Shaanxi
  • Received:2025-12-12 Accepted:2026-03-18 Online:2026-07-16 Published:2026-07-21
  • Contact: LIU MinJie, ZHENG Jun

Abstract:

【Objective】Stripe rust and leaf rust are major diseases affecting wheat production in the Huang-Huai winter wheat region, accurate identification of resistance in wheat cultivars, understanding the distribution of disease-resistance genes, excavate new disease-resistance genes/loci lays the foundation for the breeding and promotion of disease-resistant varieties.【Method】We phenotyped 326 Shanxi wheat at both seedling against the prevalent Chinese Pst races CYR32 and CYR34, and Pt race PHSH. To identify more Yr/Lr genes, we also conducted molecular detection and GBTS, using a genome-wide association study (GWAS) using a wheat 16K SNP array.【Result】Shanxi wheat seedlings demonstrate generally good resistance to stripe rust during the seedling stage, 97 cultivars such as Jinmai 919, Yunmai 766 and Linhei 199 showed good resistance to the Pst isolate CYR32 and CYR34 during the seedling stage; 15 (4.60%) cultivars such as Zhonghan 110, Zeyou 2 and Shinong 086 showed resistance to the isolate Pst isolate CYR32;14 (4.29%) cultivars such as Jinnong 207, Jinmai 13 and Linhei 199 showed resistance to the isolate Pst isolate CYR34; wheat seedlings in Shanxi Province exhibit poor resistance to leaf rust during the seedling stage, 12 cultivars showed moderate resistance to the isolate Pt isolate PHSH. Of the 23 Yr/Lr genes assayed, a total of eleven stripe rust resistance genes/QTLs have been detected, including QYrqin.nwafu-2AL (87.42%), Yr78 (27.30%), Yr9 (24.54%), QYrsn.nwafu-3DL (15.95%), Yr75 (13.19%), QYrhm.nwafu-2BC (10.73%), Yr5 (7.98%), Yr80 (2.76%), QYr.nwafu-4BL (2.15%), YrSP (1.84%) and Yr82 (1.84%), as well as seven leaf rust resistance genes, including Lr46 (28.83%), Lr1 (22.09%), Lr68 (16.87%), Lr26 (16.56%), Lr34 (11.96%), Lr13 (5.83%) and Lr37 (1.23%) were identified in wheat varieties from Shanxi province, whereas Yr15, Yr26, Lr10, Lr21 and Lr80 were not detected; for the pyramiding of multiple Yr/Lr genes, the highest proportion was the QYrqin.nwafu-2AL+QYrsn.nwafu-3DL and Lr46+Lr68 combinations. GWAS identified five loci significantly associated with stripe rust resistance, 2B, 5B and 7A may harbor novel loci associated with stripe rust resistance, simultaneously identified fourteen loci significantly associated with resistance to leaf rust disease, 1B, 4A and 5A may harbor novel loci associated with stripe rust resistance.【Conclusion】Shanxi wheat exhibits generally good resistance to stripe rust during the seedling stage, but overall resistance to leaf rust is poor, thirty-eight loci significantly associated with stripe rust/leaf rust resistance were mapped across 13 chromosomes, including 1B, 2B, and 3B. Preliminary analysis suggests that fourteen of these loci, including QYrs-2B, QLrs-2A and QLrs-4A may represent novel rust resistance loci.

Key words: Shanxi wheat, stripe rust, leaf rust, resistance gene, GWAS

Table 1

Molecular markers for wheat rust resistance genes detection"

基因 Gene 标记 Marker 引物序列 Primer sequence (5′-3′) 参考文献 References
Lr1 WR003F GGGACAGAGACCTTGGTGGA [35]
WR003R GACGATGATGATTTGCTGCTGG
Lr10 Lrk10D1 GAAGCCCTTCGTCTCATCTG [36]
Lrk10D2 TTGATTCATTGCAGATGAGATCACG
Lr21 D14-L CGCTTTTACCGAGATTGGTC [37]
D14-R TCTGGTATCTCACGAAGCCTT
Lr26+ ω-secalinF ACCTTCCTCATCTTTGTCCT [38]
ω-secalinR CCGATGCCTATACCACTACT
Lr26- Glu-B3F GGTACCAACAACAACAACCC
Glu-B3R GTTGCTGCTGAGGTTGGTTC
Lr34 csLV34F GTTGGTTAAGACTGGTGATGG [39]
csLV34R TGCTTGCTATTGCTGAATAGT
Yr5 S19M93-100-F TAATTGGGACCGAGAGACG [40]
S19M93-100-R TTCTTGCAGCTCCAAAACCT
Yr9 H20-F GTTGGAAGGGAGCTCGAGCTG [41]
H20-R GTTGGGCAGAAAGGTCGACATC
Yr15 uhw301R-F GGAGATAGAGCACATTACAGAC [12]
uhw301R-R TTTCGCATCCCACCCTACTG

Fig. 1

Standards for phenotypic identification and disease resistance level statistics of wheat stripe rust/leaf rust in Shanxi A: Disease incidence on seedling leaves of some Shanxi wheat varieties inoculated with CYR34; B: Disease incidence on seedling leaves of some Shanxi wheat varieties inoculated with PHSH; C: Seedling infection types of stripe rust in Shanxi wheat; D: Seedling infection types of leaf rust in Shanxi wheat; E: Statistics of stripe rust/leaf rust resistance levels in Shanxi wheat. HS: Highly susceptibility; MS: Middle susceptibility; MR: Middle resistant; HR: Highly resistant; IM: Immune"

Fig. 2

Frequency distribution of stripe rust/leaf rust resistance genes in Shanxi wheat varieties A: Distribution of stripe rust genes; B: Distribution of major stripe rust resistance gene combinations; C: Distribution frequency of stripe rust resistance genes in varieties of different breeding years"

Fig. 3

Partial PCR detection marker electrophoresis diagram of some stripe rust/leaf rust resistance genes A: Lr1 molecular marker WR003, 1: Shunmai 1718, 2: NC206, 3: Jinmai 102, 4: Linfen 6410, 5: Yunmai 2064, 6: Shengmai 104, 7: Jinmai 17, 8: Jinmai 38; B: Lr26 molecular marker ω-secalin, 1: Chang 6990, 2: Zhongmai 247, 3: Linhan 6, 4: Lin Y8161, 5: Zhonghan 110, 6: Lühan 1608; C: Lr34 with the csLV34 marker, 1: Baihuomai, 2: Jiahongmai, 3: Qisifeng, 4: Baikehong, 5: Siyuehuang, 6: Sanyuehuang, 7: Hongxiaomai, 8: Jinmai 70, 9: Linfen 139; D: Lr26 molecular marker Glu-B3, 1: Chang 6990, 2: Zhongmai 247, 3: Linhan 6, 4: Lin Y8161, 5: Zhonghan 110, 6: Lühan 1608; E: Yr5 molecular marker S19M93-100, 1: Jinmai 33, 2: Jinmai 63, 3: Linmai 5311, 4: Linhei 199, 5: Linhan 6, 6: Jinmai 37, 7: Jinchun 3, 8: Shinnong 086; F: Yr9 molecular marker H20, 1: Yunhan 1818, 2: Linhan 5325, 3: Zhongmai 110, 4: Linfen 139, 5: Changmai 3987, 6: Shunmai 612, 7: Zeyou 1. M denotes marker DL 50 (C, E) and DL 5000 (A-B, D and F); +: contains disease resistant genes; -: indicates the absence of disease resistant genes"

Fig. 4

Frequency distribution of leaf rust resistance genes in Shanxi wheat varieties A: Distribution of leaf rust genes; B: Distribution of major leaf rust resistance gene combinations; C: Distribution frequency of leaf rust resistance genes in varieties of different breeding years"

Table 2

SNPs significantly associated with wheat stripe rust resistance"

生理小种
Physiological race
标记
Marker
染色体
Chromosome
物理位置
Physical position (Mb)
P
P value
表型贡献率
R2 (%)
参考文献
References
CYR32 QYrs-2B 2B 394.98 3.16 5.11
QYrs-7A 7A 450.89 3.01 4.90
CYR34 QYrs-3B 3B 69.81 3.07 5.03 [43]
QYrs-3D 3D 344.36 3.09 5.07 [44]
QYrs-5B 5B 40.90 4.03 5.97
PHSH QLrs-1B 1B 276.31—310.58 3.00—3.64 5.58
QLrs-1B.1 1B 388.87 3.50 5.74—6.24
QLrs-1B.2 1B 546.67—615.58 3.21—3.38 4.90—6.02 [45]
QLrs-2A 2A 709.15—712.70 3.15—3.71 4.82—5.69
QLrs-2B 2B 593.63 3.14 4.79 [46]
QLrs-2B.1 2B 710.72 3.77 6.69
QLrs-4A 4A 108.38—132.33 3.84 6.81—7.62
QLrs-4B.1 4B 295.96—329.77 3.63—3.82 5.87—5.90
QLrs-5A 5A 314.16—355.87 3.05—3.09 4.66—4.72
QLrs-5A.1 5A 364.19—377.11 3.07—3.84 4.68—5.90
QLrs-6B 6B 633.89—704.89 3.03—3.39 4.62—6.42 [47]
QLrs-6D 6D 151.83—159.39 4.13—3.46 5.26—6.35
QLrs-6D.1 6D 237.98—258.61 3.35—3.89 5.13—5.97
QLrs-7B 7B 477.99—533.57 3.15—3.33 4.82—5.95

Fig. 5

Genome-wide association study Manhattan plot and haplotype analysis A: Manhattan plot of genome-wide association analysis for stripe rust/leaf rust phenotypes at the seedling stage; B-F: Relationship between chromosome haplotypes and stripe rust phenotype; G-J: Relationship between chromosome haplotypes and leaf rust phenotype; * and *** indicate significance at P<0.05, and P<0.001, respectively; ns indicates not significant"

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