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In silico characterization and expression of disease-resistance-related genes within the collinear region of Brassica napus blackleg resistant locus LepR1′ in B. oleracea

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Abstract

Blackleg is a devastating disease of cabbage (C genome), but so far, only a few resistant cabbage lines have been identified, and the resistance-related genes are yet to be identified. In contrast, numerous R loci have been mapped to the A or B genome. High ancestral synteny among Brassicaceae genomes suggest that homologous regions of R loci in the A or B genome may contain functional R gene(s) in the C genome. Here, we investigated the collinear region of a major Brassica napus R locus, LepR1′, in Brassica oleracea to identify genes of putative disease resistance class via comprehensive in silico analysis. The LepR1′ locus is collinear to a 17.29-Mbp region in chromosome C02 of Brassica oleracea and hosted a total of 1,392 genes, and 36 of these genes contained NBS, LRR, TIR, F-box and RLK domains. The expression of these 36 genes was profiled using qRT-PCR in the cotyledons of resistant (SCNU-03) and susceptible (SCNU-59) lines at 0, 6, 24, and 48 h after inoculation with Leptosphaeria maculans isolates 00–100s and 03–02s having the corresponding avirulent gene, AvrLep1. Among these genes, a cluster of 10 genes were differentially expressed. NBS-LRR gene Bo2g131620 had a 45-bp insertion/deletion (indel) mutation in the 3rd intron between resistant and susceptible lines. The higher expression in resistant lines against both isolates and the indel mutation in Bo2g131620 suggest that these genes may have roles in blackleg resistance in cabbage. Mapping and functional analysis will be necessary to validate such a role. Saturating the region with enough markers is recommended during mapping.

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Acknowledgements

We thank Nicholas J. Larkan and Hossein Borhan of Agriculture and Agri-Food Canada (AAFC), Saskatoon for providing the Leptosphaeria maculans isolates.

Funding

This study was supported by the Golden Seed Project (Grant No. 213007-05-4-CG100), Center for Horticultural Seed Development, Ministry of Agriculture, Food and Rural Affairs in the Republic of Korea (MAFRA). The funders had no role in the design of the study; in the collection, analyses, or interpretation of data; in the writing of the manuscript; or in the decision to publish the results.

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  1. Mostari Jahan Ferdous and Mohammad Rashed Hossain are equal contributors.

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  1. Department of Horticulture, Sunchon National University, Suncheon, Jeonnam, 57922, Republic of Korea

    Mostari Jahan Ferdous, Mohammad Rashed Hossain, Jong-In Park, Hoy-Taek Kim, Arif Hasan Khan Robin, Sathishkumar Natarajan, Manosh Kumar Biswas, Hee-Jeong Jung & Ill-Sup Nou

  2. Department of Genetics and Plant Breeding, Bangladesh Agricultural University, Mymensingh, 2202, Bangladesh

    Mohammad Rashed Hossain & Arif Hasan Khan Robin

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I-SN, J-IP and H-TK conceptualized, acquired the fund and supervised the work; MJF, SN and MRH conducted the in silico analysis; MKB conducted the microsynteny analysis, MJF performed all wet lab experiments; HJJ and AHKR assisted in sample preparation, RNA extraction and qPCR, MJF and MRH analyzed the data, interpreted the results and wrote the manuscript. All authors read the article and approved the manuscript.

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Ferdous, M.J., Hossain, M.R., Park, JI. et al. In silico characterization and expression of disease-resistance-related genes within the collinear region of Brassica napus blackleg resistant locus LepR1′ in B. oleracea. J Gen Plant Pathol 86, 442–456 (2020). https://doi.org/10.1007/s10327-020-00946-y

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