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Background <p>Plants are constantly challenged by pathogens, which can cause substantial yield losses. The aggressiveness of and damage by pathogens depends on the host-associated microbiome, which might be shaped by plant genetics to improve resistance. How different crop genotypes modulate their microbiota when challenged by a complex of pathogens is largely unknown. Here, we investigate if and how pea (<i>Pisum sativum L.</i>) genotypes shape their root microbiota upon challenge by soil-borne pathogens and how this relates to a genotype’s resistance. Building on the phenotyping efforts of 252 pea genotypes grown in naturally infested soil, we characterized root fungi and bacteria by ITS region and 16&#xa0;S rRNA gene amplicon sequencing, respectively.</p> Results <p>Pea genotype markedly affected both fungal and bacterial community composition, and these genotype-specific microbiota were associated with root rot resistance. For example, genotype resistance was correlated (R<sup>2</sup> = 19%) with root fungal community composition. Further, several key microbes, showing a high relative abundance, heritability, connectedness with other microbes, and correlation with plant resistance, were identified.</p> Conclusions <p>Our findings highlight the importance of crop genotype-specific root microbiota under root rot stress and the potential of the plant to shape its associated microbiota as a second line of defense.</p>

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Crop genotype modulates root rot resistance-associated microbial community composition and abundance of key taxa

  • 期刊论文

  • 出版模式：

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  • 发表日期：

    2025年7月15日

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  • Valentin Gfeller,
  • Michael Schneider,
  • Natacha Bodenhausen,
  • Matthew W. Horton,
  • Lukas Wille,
  • Klaus H. Oldach,
  • Bruno Studer,
  • Martin Hartmann,
  • Monika M. Messmer,
  • Pierre Hohmann

摘要

Background

Plants are constantly challenged by pathogens, which can cause substantial yield losses. The aggressiveness of and damage by pathogens depends on the host-associated microbiome, which might be shaped by plant genetics to improve resistance. How different crop genotypes modulate their microbiota when challenged by a complex of pathogens is largely unknown. Here, we investigate if and how pea (Pisum sativum L.) genotypes shape their root microbiota upon challenge by soil-borne pathogens and how this relates to a genotype’s resistance. Building on the phenotyping efforts of 252 pea genotypes grown in naturally infested soil, we characterized root fungi and bacteria by ITS region and 16 S rRNA gene amplicon sequencing, respectively.

Results

Pea genotype markedly affected both fungal and bacterial community composition, and these genotype-specific microbiota were associated with root rot resistance. For example, genotype resistance was correlated (R2 = 19%) with root fungal community composition. Further, several key microbes, showing a high relative abundance, heritability, connectedness with other microbes, and correlation with plant resistance, were identified.

Conclusions

Our findings highlight the importance of crop genotype-specific root microbiota under root rot stress and the potential of the plant to shape its associated microbiota as a second line of defense.