Fine mapping and candidate gene analysis of CRA3.7 conferring clubroot resistance in Brassica rapa

Pang, Wenxing; Xue, Zhang; Ma, Yinbo; Wang, Yingjun; Zhan, Zongxiang; Piao, Zhongyun

doi:10.1007/s00122-022-04237-2

Cited by 7 publications

(4 citation statements)

References 32 publications

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“…After sequencing and verification, Arabidopsis thaliana was transformed using dip method (Hamann et al, 2002). The resulting T 0 transgenic A. thaliana was identified (Pang et al, 2022), and positive plants were selected for future planting to obtain T 2 generation seeds.…”

Section: Vector Construction and Transformationmentioning

confidence: 99%

“…rapifera) (AA, 2n = 20) 'ECD01-04,' 'Gelria R,' 'Siloga,' 'Debra,' and 'Milan White' (Eckholm, 1993;Elke et al, 2009) have emerged as a widely utilized resistant source, successfully integrated into CR breeding programs in Chinese cabbage and canola (Piao et al, 2009). To date, 36 clubroot-resistant loci have been identified across Brassica species, including B. rapa, B. oleracea, B. napus, and B. nigra (Hasan et al, 2021;Pang et al, 2022). Among these loci, the majority are found on chromosomes A03 and A08.…”

Section: Introductionmentioning

confidence: 99%

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Fine mapping and candidate gene analysis of CRA8.1.6, which confers clubroot resistance in turnip (Brassica rapa ssp. rapa)

Wei,

Xiao,

Zhao

et al. 2024

Front. Plant Sci.

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Clubroot disease poses a significant threat to Brassica crops, necessitating ongoing updates on resistance gene sources. In F2 segregants of the clubroot-resistant inbred line BrT18-6-4-3 and susceptible DH line Y510, the genetic analysis identified a single dominant gene responsible for clubroot resistance. Through bulk segregant sequencing analysis and kompetitive allele-specific polymerase chain reaction assays, CRA8.1.6 was mapped within 110 kb (12,255–12,365 Mb) between markers L-CR11 and L-CR12 on chromosome A08. We identified B raA08g015220.3.5C as the candidate gene of CRA8.1.6. Upon comparison with the sequence of disease-resistant material BrT18-6-4-3, we found 249 single-nucleotide polymorphisms, seven insertions, six deletions, and a long terminal repeat (LTR) retrotransposon (5,310 bp) at 909 bp of the first intron. However, the LTR retrotransposon was absent in the coding sequence of the susceptible DH line Y510. Given the presence of a non-functional LTR insertion in other materials, it showed that the LTR insertion might not be associated with susceptibility. Sequence alignment analysis revealed that the fourth exon of the susceptible line harbored two deletions and an insertion, resulting in a frameshift mutation at 8,551 bp, leading to translation termination at the leucine-rich repeat domain’s C-terminal in susceptible material. Sequence alignment of the CDS revealed a 99.4% similarity to Crr1a, which indicate that CRA8.1.6 is likely an allele of the Crr1a gene. Two functional markers, CRA08-InDel and CRA08-KASP1, have been developed for marker-assisted selection in CR turnip cultivars. Our findings could facilitate the development of clubroot-resistance turnip cultivars through marker-assisted selection.

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Section: Vector Construction and Transformationmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Fine mapping and candidate gene analysis of CRA8.1.6, which confers clubroot resistance in turnip (Brassica rapa ssp. rapa)

Wei,

Xiao,

Zhao

et al. 2024

Front. Plant Sci.

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“…However, due to the pathogen's longterm survival in the soil as dormant spores, none of these methods have shown good results [23]. Therefore, breeding resistant varieties remains the most economical, effective, and environmentally friendly approach for clubroot disease management [24][25][26][27]. However, the prerequisite for this approach is the identification of clubroot disease resistance in radish germplasm [28,29].…”

Section: Introductionmentioning

confidence: 99%

Identification of Clubroot-Resistant Germplasm in a Radish (Raphanus sativus L.) Core Collection

Ma,

Wang,

Song

et al. 2024

Agronomy

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Clubroot disease, caused by Plasmodiophora brassicae, poses a significant global threat to cruciferous crops. The epidemic area of clubroot disease is expanding rapidly. In response to this pressing issue, there is a compelling need for the development of clubroot disease-resistant radish cultivars. China boasts an extensive array of radish varieties and germplasm resources. However, a comprehensive assessment of their resistance to clubroot has not yet been carried out, thereby impeding the effective utilization of germplasm and clubroot-resistant breeding. Therefore, it is urgent to systematically evaluate the clubroot resistance of the radish germplasm and identify resistant resources. In this study, clubroot resistance evaluations were conducted on 268 excellent radish varieties derived from 30 provinces in China, as well as seven accessions from Russia, North Korea, France, South Korea, and Germany. The resistance evaluation revealed a diverse range of resistance indices, with a mean disease index (DI) ranging from 0.6 to 58.5, showing significant disparities in clubroot resistance among these radish resources. A total of six accessions were characterized as highly resistant to clubroot, and a further 50 accessions were characterized as resistant. The disease-resistant radishes showed diversity in horticultural traits. Provinces in South China contributed significantly more resistance germplasm than those of North China. These materials are of great value for both genetic investigation and the crop breeding of clubroot resistance. Furthermore, we employed a previously established clubroot-resistance-linked SSR marker to analyze the clubroot-resistant resources. The accessions exhibited dissimilar genetic profiles from known clubroot-resistant germplasm, suggesting their potential status as novel sources of clubroot resistance. Conclusively, these newly identified accessions enriched the genetic diversity within the clubroot-resistant gene pool and may contribute to the future cloning of previously undiscovered clubroot-resistant genes.

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“…Genetic studies have also played a crucial role in clubroot research, as researchers have identified and characterized multiple resistance genes in cruciferous crops that confer resistance to specific pathotypes of P. brassicae ( Pang et al., 2020 ). Advancements in molecular techniques have facilitated the identification and characterization of genes involved in clubroot susceptibility and resistance ( Ueno et al., 2012 ; Hatakeyama et al., 2013 ; Pang et al., 2022 ; Wang et al., 2023 ). Effective clubroot management relies heavily on the use of resistant cultivars because chemical and cultural controls have limited effectiveness against this soil-borne disease.…”

Section: Introductionmentioning

confidence: 99%

Multiple transcription factors involved in the response of Chinese cabbage against Plasmodiophora brassicae

Meng,

Yan,

Piao

et al. 2024

Front. Plant Sci.

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Clubroot disease, which is caused by the obligate biotrophic protist Plasmodiophora brassicae, leads to the formation of galls, commonly known as pathogen-induced tumors, on the roots of infected plants. The identification of crucial regulators of host tumor formation is essential to unravel the mechanisms underlying the proliferation and differentiation of P. brassicae within plant cells. To gain insight into this process, transcriptomic analysis was conducted to identify key genes associated with both primary and secondary infection of P. brassicae in Chinese cabbage. Our results demonstrate that the k-means clustering of subclass 1, which exhibited specific trends, was closely linked to the infection process of P. brassicae. Of the 1610 differentially expressed genes (DEGs) annotated in subclass 1, 782 were identified as transcription factors belonging to 49 transcription factor families, including bHLH, B3, NAC, MYB_related, WRKY, bZIP, C2H2, and ERF. In the primary infection, several genes, including the predicted Brassica rapa probable pectate lyase, RPM1-interacting protein 4-like, L-type lectin-domain-containing receptor kinase, G-type lectin S-receptor-like serine, B. rapa photosystem II 22 kDa protein, and MLP-like protein, showed significant upregulation. In the secondary infection stage, 45 of 50 overlapping DEGs were upregulated. These upregulated DEGs included the predicted B. rapa endoglucanase, long-chain acyl-CoA synthetase, WRKY transcription factor, NAC domain-containing protein, cell division control protein, auxin-induced protein, and protein variation in compound-triggered root growth response-like and xyloglucan glycosyltransferases. In both the primary and secondary infection stages, the DEGs were predicted to be Brassica rapa putative disease resistance proteins, L-type lectin domain-containing receptor kinases, ferredoxin-NADP reductases, 1-aminocyclopropane-1-carboxylate synthases, histone deacetylases, UDP-glycosyltransferases, putative glycerol-3-phosphate transporters, and chlorophyll a-binding proteins, which are closely associated with plant defense responses, biosynthetic processes, carbohydrate transport, and photosynthesis. This study revealed the pivotal role of transcription factors in the initiation of infection and establishment of intracellular parasitic relationships during the primary infection stage, as well as the proliferation and differentiation of the pathogen within the host cell during the secondary infection stage.

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Fine mapping and candidate gene analysis of CRA3.7 conferring clubroot resistance in Brassica rapa

Cited by 7 publications

References 32 publications

Fine mapping and candidate gene analysis of CRA8.1.6, which confers clubroot resistance in turnip (Brassica rapa ssp. rapa)

Fine mapping and candidate gene analysis of CRA8.1.6, which confers clubroot resistance in turnip (Brassica rapa ssp. rapa)

Identification of Clubroot-Resistant Germplasm in a Radish (Raphanus sativus L.) Core Collection

Multiple transcription factors involved in the response of Chinese cabbage against Plasmodiophora brassicae

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