Evidence map›Paper›PMID 40289080›Full record

ArticleBMC biology2025

Recombination and transposition drive genomic structural variation potentially impacting life history traits in a host-generalist fungal plant pathogen.

Mark C Derbyshire, Toby E Newman, Yuphin Khentry, Pippa J Michael, Sarita Jane Bennett, Ashmita Rijal Lamichhane, Carolyn Graham-Taylor, Subhash Chander, Claudia Camplone, Simone Vicini and 6 more

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In one paragraph

Article in BMC biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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0citing papers in PubMed
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1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

16 authors.

Mark C DerbyshireCentre for Crop and Disease Management, Curtin University, Perth, WA, Australia. mark.derbyshire@curtin.edu.au.
Toby E NewmanCentre for Crop and Disease Management, Curtin University, Perth, WA, Australia.
Yuphin KhentryCentre for Crop and Disease Management, Curtin University, Perth, WA, Australia.
Pippa J MichaelCentre for Crop and Disease Management, Curtin University, Perth, WA, Australia.
Sarita Jane BennettCentre for Crop and Disease Management, Curtin University, Perth, WA, Australia.
Ashmita Rijal LamichhaneCentre for Crop and Disease Management, Curtin University, Perth, WA, Australia.
Carolyn Graham-TaylorCentre for Crop and Disease Management, Curtin University, Perth, WA, Australia.
Subhash ChanderDepartment of Genetics and Plant Breeding, Oilseeds Section, CCS Haryana Agricultural University, Hisar-125004, India.
Claudia CamploneCentre for Crop and Disease Management, Curtin University, Perth, WA, Australia.
Simone ViciniCentre for Crop and Disease Management, Curtin University, Perth, WA, Australia.
Laura Esquivel-GarciaPlant Science, Mcgill University, Sainte-Anne-de-Bellevue, QC, Canada.
Cathy CoutuAgriculture and Agri-Food Canada, Saskatoon, SK, Canada.
Dwayne HegedusAgriculture and Agri-Food Canada, Saskatoon, SK, Canada.
John ClarksonWarwick Crop Centre, School of Life Sciences, University of Warwick, Warwick, UK.
Kurt LindbeckDepartment of Primary Industries, Wagga Wagga, New South Wales, Australia.
Lars G KamphuisCentre for Crop and Disease Management, Curtin University, Perth, WA, Australia.

Funding

Erasmus+ Extra EU Mobility, University of Perugia 2021-1-IT02-KA131-HED-000007409Grains Research and Development Corporation CUR00023
6 · The paper itself

Abstract

backgroundAn understanding of plant pathogen evolution is important for sustainable management of crop diseases. Plant pathogen populations must maintain adequate heritable phenotypic variability to survive. Polymorphisms ≥ 50 bp, known as structural variants (SVs), could contribute strongly to this variability by disrupting gene activities. SV acquisition is largely driven by mobile genetic elements called transposons, though a less appreciated source of SVs is erroneous meiotic double-strand break repair. The relative impacts of transposons and recombination on SV diversity and the overall contribution of SVs to phenotypic variability is elusive, especially in host generalists.

resultsWe use 25 high-quality genomes to create a graphical pan-genome of the globally distributed host-generalist crop pathogen Sclerotinia sclerotiorum. Outcrossing and recombination rates in this self-fertile species have been debated. Using bisulfite sequencing and short-read data from 190 strains, we show that S. sclerotiorum has many hallmarks of eukaryotic meiosis, including recombination hot and cold spots, centromeric and genic recombination suppression, and rapid linkage disequilibrium decay. Using a new statistic that captures average pairwise structural variation, we show that recombination and transposons make distinct contributions to SV diversity. Furthermore, despite only 5% of genes being dispensable, SVs often had a stronger impact than other variants across 14 life history traits measured in 103 distinct strains.

conclusionsTransposons and recombination make distinct contributions to SV diversity in S. sclerotiorum. Despite limited gene content diversity, SVs may strongly impact phenotypic variability. This sheds light on the genomic forces shaping adaptive flexibility in host generalists.

Indexed as

AscomycotaDNA Transposable ElementsGenome, FungalGenomic Structural VariationLife History TraitsPlant DiseasesRecombination, GeneticDNA Transposable ElementsFungusGenome graphPlant pathogenRecombinationSclerotinia sclerotiorumStructural variant

Identifiers

PMID40289080
PMCPMC12036203

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.