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Series GSE204837 Query DataSets for GSE204837
Status Public on Nov 13, 2023
Title A quantitative model of MET1-catalyzed establishment and epigenetic inheritance of DNA methylation
Organism Arabidopsis thaliana
Experiment type Methylation profiling by high throughput sequencing
Summary Methylation of CG dinucleotides (mCG), which regulates genome function in eukaryotes, is epigenetically propagated by Dnmt1/MET1 methyltransferases via a semiconservative mechanism. How these enzymes accomplish stable epigenetic inheritance despite imperfect fidelity remains mysterious. Here we show that MET1 de novo activity, which is enhanced by existing proximate methylation, seeds and stabilizes mCG in Arabidopsis thaliana genes. MET1 activity is delimited by active DNA demethylation and counterbalanced by histone variant H2A.Z, natural variation in which accounts for high genic methylation in accessions from northern Sweden. Based on these observations, we develop a mathematical model that precisely recapitulates mCG inheritance dynamics and successfully predicts steady-state intragenic mCG patterns and their population-scale variation given only CG site spacing as input. Our results demonstrate how methylation patterns are created in plant genes, reconcile imperfect mCG maintenance with long-term stability, and establish a quantitative model for the epigenetic inheritance of mCG.
Overall design Bisulfite sequencing was carried out on leaf genomic DNA from a multi-generational Col-0 Arabidopsis thaliana lineage in different mutant genotypes
Contributor(s) Zilberman D, Hollwey E
Citation(s) 37944515
Submission date May 25, 2022
Last update date Nov 14, 2023
Contact name Daniel Zilberman
Organization name Institute of Science and Technology Austria
Street address Am Campus 1
City Klosterneuburg
ZIP/Postal code 3040
Country Austria
Platforms (1)
GPL19580 Illumina NextSeq 500 (Arabidopsis thaliana)
Samples (155)
GSM6198463 cmt3_Gen0_rep1
GSM6198464 cmt3_Gen0_rep2
GSM6198465 cmt3_Gen1_Line1
BioProject PRJNA842430

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Supplementary file Size Download File type/resource
GSE204837_RAW.tar 6.3 Gb (http)(custom) TAR (of GFF)
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Raw data are available in SRA
Processed data provided as supplementary file

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