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

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Abstract

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In this study, we fine-mapped a clubroot resistance gene CRA3.7 in Chinese cabbage and developed its closely linked marker syau-InDel3008 for marker-assisted selection in CR cultivars breeding.

Abstract

Chinese cabbage is an important leafy vegetable rich in many nutrients widely grown in China. Clubroot disease caused by an obligate biotrophic pathogen Plasmodiophora brassicae was rapidly spread and challenged to Chinese cabbage production. A clubroot resistance (CR) gene, CRA3.7, was mapped on chromosome A03 of Brassica rapa. A Chinese cabbage line ‘CR510’, which harbor homozygous resistance locus CRA3.7 was selected from a BC4F3 family. ‘CR510’ was crossed with a clubroot susceptible Chinese cabbage inbred line ‘59-1’. Total 51 recombinant plants were identified from an F2 population including 3000 individuals. These recombinants were selfed and the clubroot resistance of F2/3 families was evaluated. Finally, a clubroot resistance gene CRA3.7 was fine-mapped to an interval of approximately 386 kb between marker syau-InDel3024 and syau-InDel3008. According to the reference genome, total 54 genes including five encoding the TIR-NBS-LRR proteins was annotated in the fine-mapped region. Further, nine candidate’s gene expression in parental lines at 7, 14 and 21 days after inoculation of P. brassicae were evaluated. Bra019376, Bra019401, Bra019403 and Bra019410 are highly expressed in ‘CR510’ than ‘59-1’. Gene sequence of Bra019410 from ‘CR510’ was cloned and identified different from CRa. Therefore, Bra019376, Bra019401, Bra019403 and Bra019410 are the most likely candidates for CRA3.7. Our research provides a valuable germplasm resource against P. brassicae Pb3 and CRA3.7 closely linked marker for marker-assisted selection in CR cultivars breeding.

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Data availability

The datasets generated and analyzed during this study are available on reasonable requests from the corresponding authors. The raw data of whole genome re-sequencing have been deposited in the NCBI Sequence Read Archive (SRA) repository under the accession numbers SAMN28869001 and SAMN28869002.

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Acknowledgment

The authors thank Prof. Yue Liang for the construction suggestions on the writing of this paper, as well as the laboratory members for assistance with the plant materials growing and surveys of clubroot resistance tests.

Funding

This study was supported by grants from the National Natural Science Foundation of China, Project No. 32272720; the Liaoning Natural Science Foundation (2021-MS-229), the China Postdoctoral Science Foundation (2016M600214).

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Author notes

  1. Wenxing Pang and Xue Zhang contributed equally to this work.

Authors and Affiliations

  1. College of Horticulture, Shenyang Agricultural University, Shenyang, 110866, China

    Wenxing Pang, Xue Zhang, Yingjun Wang, Zongxiang Zhan & Zhongyun Piao

  2. School of Horticulture and Plant Protection, Yangzhou University, Yangzhou, 225009, China

    Yinbo Ma

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  1. Wenxing Pang
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  2. Xue Zhang
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Contributions

XZ, WXP and YW carried out experiments, generated data. WXP analyzed the data and wrote the original manuscript. YM and ZZ participated in data analysis. WXP and ZYP conceived the study, participated in its coordination. All authors have read and approved the final manuscript.

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Correspondence to Wenxing Pang or Zhongyun Piao.

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Communicated by Jacqueline Batley.

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Pang, W., Zhang, X., Ma, Y. et al. Fine mapping and candidate gene analysis of CRA3.7 conferring clubroot resistance in Brassica rapa. Theor Appl Genet 135, 4541–4548 (2022). https://doi.org/10.1007/s00122-022-04237-2

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