On Variant Discovery in Genomes of Fungal Plant Pathogens.

ABSTRACT: Comparative genome analyses of eukaryotic pathogens including fungi and oomycetes have revealed extensive variability in genome composition and structure. The genomes of individuals from the same population can exhibit different numbers of chromosomes and different organization of chromosomal segments, defining so-called accessory compartments that have been shown to be crucial to pathogenicity in plant-infecting fungi. This high level of structural variation confers a methodological challenge for population genomic analyses. Variant discovery from population sequencing data is typically achieved using established pipelines based on the mapping of short reads to a reference genome. These pipelines have been developed, and extensively used, for eukaryote genomes of both plants and animals,

SUBMITTER: Potgieter L 

PROVIDER: S-EPMC7176817 | biostudies-literature | 2020

REPOSITORIES: biostudies-literature