Conditional GWAS of non-CG transposon methylation in Arabidopsis thaliana reveals major polymorphisms in five genes

Genome-wide association studies (GWAS) have revealed that the striking natural variation for DNA CHH-methylation (mCHH; H is A, T, or C) of transposons has oligogenic architecture involving major alleles at a handful of known methylation regulators. Here we use a conditional GWAS approach to show th...

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Bibliographic Details
Published in:PLoS genetics 2022-09, Vol.18 (9), p.e1010345
Main Authors: Sasaki, Eriko, Gunis, Joanna, Reichardt-Gomez, Ilka, Nizhynska, Viktoria, Nordborg, Magnus
Format: Article
Language:English
Subjects:
Analysis
Arabidopsis - genetics
Arabidopsis thaliana
Biology and Life Sciences
Cell division
DNA methylation
DNA Methylation - genetics
DNA Transposable Elements - genetics
Epigenetics
Gene Expression Regulation, Plant
Genetic aspects
Genetic polymorphisms
Genome-wide association studies
Genome-Wide Association Study
Genomes
Methylation
Regulation
RNA polymerase
Transposons
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Summary:Genome-wide association studies (GWAS) have revealed that the striking natural variation for DNA CHH-methylation (mCHH; H is A, T, or C) of transposons has oligogenic architecture involving major alleles at a handful of known methylation regulators. Here we use a conditional GWAS approach to show that CHG-methylation (mCHG) has a similar genetic architecture-once mCHH is statistically controlled for. We identify five key trans-regulators that appear to modulate mCHG levels, and show that they interact with a previously identified modifier of mCHH in regulating natural transposon mobilization.
ISSN:1553-7404
1553-7390
1553-7404
DOI:10.1371/journal.pgen.1010345