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Series GSE54292 Query DataSets for GSE54292
Status Public on Mar 28, 2015
Title DNA methylation variation in Arabidopsis has a genetic basis and appears to be involved in local adaptation
Organism Arabidopsis thaliana
Experiment type Methylation profiling by high throughput sequencing
Summary Here we investigate DNA methylation variation in Swedish Arabidopsis thaliana accessions, demonstrating that methylation of transposable elements is temperature sensitive and associated with genetic polymorphism in both cis and trans, whereas gene body methylation is highly correlated with climate of origin and associated with genetic polymorphism in trans that shows evidence of local adaptation. While genome-wide surveys of naturally occurring DNA methylation have been published previously, the degree of genetic control revealed here is unprecedented. Furthermore, the observation that DNA methylation is associated with climate, and is apparently adaptively important, is completely novel.
Overall design Bisulfite sequencing of 152 Swedish Arabidobsis accessions grown at 10 C and 121 grown at 16 C
Contributor(s) Dubin MJ, Nordborg M
Citation(s) 25939354
Submission date Jan 22, 2014
Last update date May 15, 2019
Contact name Manu Dubin
Organization name Gregor Mendel Institute, Austrian Academy of Sciences
Street address Dr. Bohr-Gasse 3
City Vienna
ZIP/Postal code 1030
Country Austria
Platforms (1)
GPL13222 Illumina HiSeq 2000 (Arabidopsis thaliana)
Samples (284)
GSM1311990 1061_10C
GSM1311991 1061_16C
GSM1311992 1062_10C
BioProject PRJNA236110
SRA SRP035593

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SOFT formatted family file(s) SOFTHelp
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE54292_RAW.tar 83.2 Gb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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