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Volume 10, Issue 11

Population-level whole-genome sequencing of identifies genomic loci associated with isolate aggressiveness Open Access

Abstract

Ascochyta blight caused by the ascomycete poses a major biotic threat to chickpea () industries worldwide and incurs substantial costs to the Australian multimillion-dollar chickpea industry in both disease control and yield loss. The fungus was introduced to Australia in the 1970s from an unknown source population and, within a few decades, successfully established in all Australian agroecological chickpea-growing regions. Although genetically highly clonal, a broad range of phenotypic variation in terms of aggressiveness exists among the Australian isolates. More recently, highly aggressive isolates capable of causing severe disease symptoms on moderate to highly resistant chickpea cultivars have increased in frequency. To identify genetic loci potentially associated with aggressiveness on Australian chickpea cultivars, we performed deep genome sequencing of 230 isolates collected from a range of agroecological chickpea-growing regions between 2013 and 2020. Population genetic analyses using genome-wide SNP data identified three main clusters of genetically closely related isolates in Australia. Phylogenetic analyses showed that highly aggressive phenotypes developed multiple times independently throughout the phylogeny. The results point to a minor contribution of multiple genetic regions and most likely epigenomic variations to aggressiveness of isolates on Australian chickpea cultivars.

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): Ascochyta blight , Ascochyta rabiei , chickpea , fungal plant pathogen , population genomics and whole-genome sequencing
Funding
This study was supported by the:
  • Grains Research and Development Corporation (Award GRI2007-001RTX)
    • Principle Award Recipient: RebeccaFord
© 2024 The Authors
  • This is an open-access article distributed under the terms of the Creative Commons Attribution License. This article was made open access via a Publish and Read agreement between the Microbiology Society and the corresponding author’s institution.
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2024-12-09
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Population-level whole-genome sequencing of Ascochyta rabiei identifies genomic loci associated with isolate aggressiveness
M Gen 10, 001326 (2024); https://doi.org/10.1099/mgen.0.001326
/content/journal/mgen/10.1099/mgen.0.001326
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