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Series GSE64463 Query DataSets for GSE64463
Status Public on May 13, 2015
Title Rate, spectrum, and evolutionary dynamics of spontaneous epimutations
Organism Arabidopsis thaliana
Experiment type Methylation profiling by high throughput sequencing
Third-party reanalysis
Summary Stochastic changes in cytosine methylation are a source of heritable epigenetic and phenotypic diversity in plants. Using the model plant Arabidopsis thaliana, we derive robust estimates of the rate at which methylation is spontaneously gained (forward epimutation) or lost (backward epimutation) at individual cytosines and construct a comprehensive picture of the epimutation landscape in this species. We demonstrate that the dynamic interplay between forward and backward epimutations is modulated by genomic context and show that subtle contextual differences have profoundly shaped patterns of methylation diversity in A. thaliana natural populations over evolutionary timescales. Theoretical arguments indicate that the epimutation rates reported here are high enough to rapidly uncouple genetic from epigenetic variation, but low enough for new epialleles to sustain long-term selection responses. Our results provide new insights into methylome evolution and its population-level consequences.
Overall design MethylC-seq of Arabidopsis thaliana
Contributor(s) Schmitz RJ
Citation(s) 25964364, 33023650
Submission date Dec 23, 2014
Last update date Oct 13, 2020
Contact name Robert J Schmitz
Organization name University of Georgia
Department Genetics
Street address B416 Davison Life Sciences
City Athens
State/province GA
ZIP/Postal code 30602
Country USA
Platforms (1)
GPL19580 Illumina NextSeq 500 (Arabidopsis thaliana)
Samples (19)
GSM1571832 MA1_3_G18_12_r1
GSM1571833 MA1_3_G19_12_r1
GSM1571834 MA1_3_G20_12_r1
BioProject PRJNA271082
SRA SRP051507

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE64463_MA1_1_G31_109_r1.txt.gz 162.1 Mb (ftp)(http) TXT
GSE64463_MA1_1_G31_109_r2.txt.gz 157.6 Mb (ftp)(http) TXT
GSE64463_MA1_1_G31_119_r1.txt.gz 160.6 Mb (ftp)(http) TXT
GSE64463_MA1_1_G31_119_r2.txt.gz 161.5 Mb (ftp)(http) TXT
GSE64463_MA1_1_G31_29_r1.txt.gz 158.6 Mb (ftp)(http) TXT
GSE64463_MA1_1_G31_29_r2.txt.gz 164.9 Mb (ftp)(http) TXT
GSE64463_MA1_1_G31_29_r3.txt.gz 159.2 Mb (ftp)(http) TXT
GSE64463_MA1_1_G31_39_r1.txt.gz 163.8 Mb (ftp)(http) TXT
GSE64463_MA1_1_G31_39_r2.txt.gz 158.6 Mb (ftp)(http) TXT
GSE64463_MA1_1_G31_49_r1.txt.gz 160.9 Mb (ftp)(http) TXT
GSE64463_MA1_1_G31_49_r2.txt.gz 163.2 Mb (ftp)(http) TXT
GSE64463_MA1_1_G31_59_r1.txt.gz 163.1 Mb (ftp)(http) TXT
GSE64463_MA1_1_G31_59_r2.txt.gz 157.4 Mb (ftp)(http) TXT
GSE64463_MA1_1_G31_79_r1.txt.gz 162.9 Mb (ftp)(http) TXT
GSE64463_MA1_1_G31_79_r2.txt.gz 164.6 Mb (ftp)(http) TXT
GSE64463_MA1_1_G31_89_r1.txt.gz 160.7 Mb (ftp)(http) TXT
GSE64463_MA1_1_G31_89_r2.txt.gz 157.8 Mb (ftp)(http) TXT
GSE64463_MA1_1_G31_99_r1.txt.gz 162.1 Mb (ftp)(http) TXT
GSE64463_MA1_1_G31_99_r2.txt.gz 156.6 Mb (ftp)(http) TXT
GSE64463_MA1_1_G31_99_r3.txt.gz 164.1 Mb (ftp)(http) TXT
GSE64463_MA1_1_G32_39_r1.txt.gz 160.3 Mb (ftp)(http) TXT
GSE64463_MA1_1_G32_39_r2.txt.gz 157.9 Mb (ftp)(http) TXT
GSE64463_MA1_1_G32_49_r1.txt.gz 157.0 Mb (ftp)(http) TXT
GSE64463_MA1_1_G32_49_r2.txt.gz 154.3 Mb (ftp)(http) TXT
GSE64463_MA1_1_G3_26_r1.txt.gz 156.7 Mb (ftp)(http) TXT
GSE64463_MA1_1_G3_87_r1.txt.gz 161.6 Mb (ftp)(http) TXT
GSE64463_MA1_1_G3_87_r2.txt.gz 155.8 Mb (ftp)(http) TXT
GSE64463_MA1_2_G31_119_r1.txt.gz 170.5 Mb (ftp)(http) TXT
GSE64463_MA1_2_G31_119_r2.txt.gz 156.5 Mb (ftp)(http) TXT
GSE64463_MA1_2_G31_29_r1.txt.gz 170.7 Mb (ftp)(http) TXT
GSE64463_MA1_2_G31_29_r2.txt.gz 164.2 Mb (ftp)(http) TXT
GSE64463_MA1_2_G31_49_r1.txt.gz 170.3 Mb (ftp)(http) TXT
GSE64463_MA1_2_G31_49_r2.txt.gz 162.9 Mb (ftp)(http) TXT
GSE64463_MA1_2_G31_59_r1.txt.gz 170.1 Mb (ftp)(http) TXT
GSE64463_MA1_2_G31_59_r2.txt.gz 162.7 Mb (ftp)(http) TXT
GSE64463_MA1_2_G3_12_r1.txt.gz 172.0 Mb (ftp)(http) TXT
GSE64463_MA1_2_G3_12_r2.txt.gz 171.8 Mb (ftp)(http) TXT
GSE64463_MA1_2_G3_19_r1.txt.gz 169.9 Mb (ftp)(http) TXT
GSE64463_MA1_2_G3_19_r2.txt.gz 163.9 Mb (ftp)(http) TXT
GSE64463_MA1_2_G3_1_r1.txt.gz 170.2 Mb (ftp)(http) TXT
GSE64463_MA1_2_G3_1_r2.txt.gz 163.5 Mb (ftp)(http) TXT
GSE64463_RAW.tar 2.9 Gb (http)(custom) TAR (of TXT)
GSE64463_readme.txt.gz 317 b (ftp)(http) TXT
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Processed data provided as supplementary file
Raw data are available in SRA
Processed data are available on Series record

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