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The genome-wide dynamics of purging during selfing in maize
journal contribution
posted on 2023-06-09, 19:12 authored by Kyria Roessler, Aline Muyle, Concepcion M Diez, Garren R J Gaut, Alexandros BousiosAlexandros Bousios, Michelle C Stitzer, Danelle K Seymour, John F Doebley, Qingpo Liu, Brandon S GautSelf-fertilization (also known as selfing) is an important reproductive strategy in plants and a widely applied tool for plant genetics and plant breeding. Selfing can lead to inbreeding depression by uncovering recessive deleterious variants, unless these variants are purged by selection. Here we investigated the dynamics of purging in a set of eleven maize lines that were selfed for six generations. We show that heterozygous, putatively deleterious single nucleotide polymorphisms are preferentially lost from the genome during selfing. Deleterious single nucleotide polymorphisms were lost more rapidly in regions of high recombination, presumably because recombination increases the efficacy of selection by uncoupling linked variants. Overall, heterozygosity decreased more slowly than expected, by an estimated 35% to 40% per generation instead of the expected 50%, perhaps reflecting pervasive associative overdominance. Finally, three lines exhibited marked decreases in genome size due to the purging of transposable elements. Genome loss was more likely to occur for lineages that began with larger genomes with more transposable elements and chromosomal knobs. These three lines purged an average of 398?Mb from their genomes, an amount equivalent to three Arabidopsis thaliana genomes per lineage, in only a few generations.
Funding
Silencing, rewiring, escaping: the epigenetic and evolutionary interactions between plant transposable elements and their host genomes; G2272; ROYAL SOCIETY; UF 160222
Structural and functional aspects of the RNAi recognition and regulatory exaptation of TE cis-regions by plant hosts; G2381; ROYAL SOCIETY; RGF\R1\180006
History
Publication status
- Published
File Version
- Accepted version
Journal
Nature PlantsISSN
2055-026XPublisher
Nature ResearchExternal DOI
Issue
9Volume
5Page range
980-990Department affiliated with
- Evolution, Behaviour and Environment Publications
Full text available
- Yes
Peer reviewed?
- Yes
Legacy Posted Date
2019-10-02First Open Access (FOA) Date
2020-03-02First Compliant Deposit (FCD) Date
2019-10-10Usage metrics
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