A population-level invasion by transposable elements in a fungal pathogen

BioRxiv : the Preprint Server for Biology
Ursula OggenfussDaniel Croll

Abstract

AO_SCPLOWBSTRACTC_SCPLOWTransposable elements (TEs) are key drivers of adaptive evolution within species. Yet, the propagation of TEs across the genome can be highly deleterious and ultimately lead to genome expansions. Hence, TE activity is likely under complex selection regimes within species. To address this, we analyzed a large whole-genome sequencing dataset of the fungal wheat pathogen Zymoseptoria tritici harboring TE-mediated adaptations to overcome host defenses and fungicides. We built a robust map of genome-wide TE insertion and deletion loci for six populations and 284 fungal individuals across the world. We identified a total of 2456 unfixed TE loci within the species and a significant excess of rare insertions indicating strong purifying selection. A subset of TEs recently swept to near complete fixation with at least one locus likely contributing to higher levels of fungicide resistance. TE-driven adaptation was also supported by evidence for selective sweeps. In parallel, we identified a substantial genome-wide expansion of TE families from the pathogens center of origin to more recently founded populations, suggesting that population bottlenecks played a major role in shaping TE content of the genome. The most ...Continue Reading

Citations

Nov 18, 2020·Phytopathology·Pauline HessenauerRichard C Hamelin
May 30, 2021·Genome Biology and Evolution·Markus HiltunenHanna Johannesson

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Datasets Mentioned

BETA
PRJNA596434
PRJNA327615

Methods Mentioned

BETA
genotyping
PCA
environmental stress

Software Mentioned

FastQC
blastn
samtools
R package hierfstat
TreeGraph
Quast
SelectVariants
BUSCO
ngs
R package drc

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