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Fine-mapping of a major QTL (Fwr1) for fusarium wilt resistance in radish

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A major radish QTL (Fwr1) for fusarium wilt resistance was fine-mapped. Sequence and expression analyses suggest that a gene encoding a serine/arginine-rich protein kinase is a candidate gene for Fwr1.

Abstract

Fusarium wilt resistance locus 1 (Fwr1) is a major quantitative trait locus (QTL) mediating the resistance of radish inbred line ‘B2’ to Fusarium oxysporum, which is responsible for fusarium wilt. We previously detected Fwr1 on radish linkage group 3 (i.e., chromosome 5). In this study, a high-resolution genetic map of the Fwr1 locus was constructed by analyzing 354 recombinant F2 plants derived from a cross between ‘B2’ and ‘835’, the latter of which is susceptible to fusarium wilt. The Fwr1 QTL was fine-mapped to a 139.8-kb region between markers FM82 and FM87 in the middle part of chromosome 5. Fifteen candidate genes were predicted in this region based on a sequence comparison with the ‘WK10039’ radish reference genome. Additionally, we examined the time-course expression patterns of these predicted genes following an infection by the fusarium wilt pathogen. The ORF4 expression level was significantly higher in the resistant ‘B2’ plants than in the susceptible ‘835’ plants. The ORF4 sequence was predicted to encode a serine/arginine-rich protein kinase and includes SNPs that result in nonsynonymous mutations, which may have important functional consequences. This study reveals a novel gene responsible for fusarium wilt resistance in radish. Further analyses of this gene may elucidate the molecular mechanisms underlying the fusarium wilt resistance of plants.

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Acknowledgements

This research was supported by the Korea Institute of Planning and Evaluation for Technology in Food, Agriculture, Forestry and Fisheries through the Golden Seed Project, which is funded by the Ministry of Agriculture, Food and Rural Affairs (Grant Numbers 213006-05-3-SBO20 and 213006-05-3-SB110).

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  1. Xiaona Yu and Lu Lu contributed equally to this work.

Authors and Affiliations

  1. Molecular Genetics and Genomics Laboratory, Department of Horticulture, Chungnam National University, Daejeon, Korea

    Xiaona Yu, Lu Lu, Yinbo Ma, Sushil Satish Chhapekar, So Young Yi, Yong Pyo Lim & Su Ryun Choi

  2. Agronomy Department, Qingdao Agricultural University, Qingdao, Shandong, China

    Xiaona Yu

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  1. Xiaona Yu
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Contributions

XY and LL designed the experiment, carried out the marker development, analyzed all data, and drafted the manuscript. LL and YM were participated in phenotype evaluations, and marker survey and genotyping, candidate gene identification. SSC participated in data analysis and modification of the manuscript. SYY interpreted the data and designed the experiment. YPL provided plant materials, conceived the study, and finalized the manuscript. SRC conceived and designed the study, participated as a director, and wrote the manuscript. All authors read and approved the final manuscript.

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Correspondence to Su Ryun Choi.

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Supplementary Fig. 1(a)

Multiple sequence alignment and phylogenetic analysis of the following Cruciferae species and proteins: Arabidopsis thaliana (AT3G53030), Raphanus sativus paralog of RS258060 (Rs568250), R. sativus SRPK reference sequence (Rs258060), ‘B2’ SRPK (Rs258060), ‘835’ SRPK (Rs258060), Brassica rapa (Bra006970), Brassica oleracea (Bol025090), Brassica napus (GSBRNA2T00109131001), Brassica juncea (BjuA035510), Zea mays (ONM09221.1), Oryza sativa (XP_015630587.1), Solanum lycopersicum (XP_004250999.1), and Capsicum annuum (XP_016547285.1). (a) Multiple sequence alignment of 13 sequences. The fully conserved residues are indicated in black, whereas the residues with a lower degree of conservation are indicated in gray. Various conserved kinase subdomains are marked with Roman numerals above the aligned sequences (PDF 1193 kb)

Supplementary Fig. 1(b)

Phylogenetic relationships among 13 SRPK sequences from radish (‘B2’ and ‘835’) and other plant species. The ‘B2’ SRPK is relatively closely related to a sequence encoded in the radish reference genome. The phylogenetic tree was constructed according to the neighbor-joining method of CLUSTAL W (Thompson et al. 1997). (TIFF 468 kb)

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Yu, X., Lu, L., Ma, Y. et al. Fine-mapping of a major QTL (Fwr1) for fusarium wilt resistance in radish. Theor Appl Genet 133, 329–340 (2020). https://doi.org/10.1007/s00122-019-03461-7

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