Pathogen lifestyle determines host genetic signature of quantitative disease resistance loci in oilseed rape (Brassica napus)
Tuesday, 2024/03/05 | 08:24:16
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Catherine N. Jacott, Henk-jan Schoonbeek, Gurpinder Singh Sidhu, Burkhard Steuernagel, Rachel Kirby, Xiaorong Zheng, Andreas von Tiedermann, Violetta K. Macioszek, Andrzej K. Kononowicz, Heather Fell, Bruce D. L. Fitt, Georgia K. Mitrousia, Henrik U. Stotz, Christopher J. Ridout & Rachel Wells Theoretical and Applied Genetics; March 2024; vol.137; article 65 Key messageUsing associative transcriptomics, our study identifies genes conferring resistance to four diverse fungal pathogens in crops, emphasizing key genetic determinants of multi-pathogen resistance. AbstractCrops are affected by several pathogens, but these are rarely studied in parallel to identify common and unique genetic factors controlling diseases. Broad-spectrum quantitative disease resistance (QDR) is desirable for crop breeding as it confers resistance to several pathogen species. Here, we use associative transcriptomics (AT) to identify candidate gene loci associated with Brassica napus constitutive QDR to four contrasting fungal pathogens: Alternaria brassicicola, Botrytis cinerea, Pyrenopeziza brassicae, and Verticillium longisporum. We did not identify any shared loci associated with broad-spectrum QDR to fungal pathogens with contrasting lifestyles. Instead, we observed QDR dependent on the lifestyle of the pathogen—hemibiotrophic and necrotrophic pathogens had distinct QDR responses and associated loci, including some loci associated with early immunity. Furthermore, we identify a genomic deletion associated with resistance to V. longisporum and potentially broad-spectrum QDR. This is the first time AT has been used for several pathosystems simultaneously to identify host genetic loci involved in broad-spectrum QDR. We highlight constitutive expressed candidate loci for broad-spectrum QDR with no antagonistic effects on susceptibility to the other pathogens studies as candidates for crop breeding. In conclusion, this study represents an advancement in our understanding of broad-spectrum QDR in B. napus and is a significant resource for the scientific community.
See https://link.springer.com/article/10.1007/s00122-024-04569-1
Figure 1: Brassica napus genotypes have common GEMs associated with resistance pathogens of the same lifestyle. a Brassica napus disease resistance to fungal pathogens is quantitative. Resistance phenotype (arbitrary units (a.u.)) of different B. napus genotypes to Alternaria brassicicola (A.b), Botrytis cinerea (B.c), Pyrenopeziza brassicae (P.b), or Verticillium longisporum (V.l). Arbitrary units signify resistance values obtained through the reciprocal of disease susceptibility scores, derived from estimated marginal means and normalized to a 0–1 range for comparative data visualization. The total number of genotypes used for each pathogen assay and the position of reference genotypes Quinta (Q), Tapidor (T), Westar (W), and Zhongshuang 11 (Z) are indicated. b Correlation between the resistance phenotype of B. napus lines to the fungal pathogens. Positive correlations (green), negative correlations (red), and no correlation (n.s.); strengths of correlation (sizes of circles) are indicated between pairwise comparisons of resistance responses. c Manhattan plot of B. napus genome showing marker-trait association of statistically significant GEMs for resistance to each fungal pathogen. The x-axis indicates GEM location along the chromosome; the y-axis indicates the − log10(p) (P value). d The numbers of resistance and susceptibility gene expression markers (GEMs) shared between pairwise comparisons of pathogens. e The numbers of GEMs associated with resistance to one pathogen and susceptibility to another pathogen. f Venn diagrams showing the overlap between A.b and B.c susceptibility GEMs and P.b and V.l resistance GEMs (right) and the overlap between A.b and B.c resistance GEMs and P.b and V.l susceptibility GEMs (left). g Linear regression analysis of gene expression (RPKM) of Cab032851.1 relative to resistance to fungal pathogens (arbitrary units (a.u.), normalized values between zero and one)
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