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Series GSE121150 Query DataSets for GSE121150
Status Public on Nov 27, 2018
Title Excess light priming in Arabidopsis thaliana genotypes with altered DNA methylomes
Organism Arabidopsis thaliana
Experiment type Expression profiling by high throughput sequencing
Methylation profiling by high throughput sequencing
Summary Plants must continuously react to the ever-fluctuating nature of their environment. Repeated exposure to stressful conditions can lead to priming, whereby prior encounters heighten a plant’s ability to respond to future events. A clear example of priming is provided by the model plant species Arabidopsis thaliana (Arabidopsis), in which photosynthetic and photoprotective responses are enhanced following recurring light stress. While there are various post-translational mechanisms underpinning photoprotection, an unresolved question is the relative importance of transcriptional changes towards stress priming and, consequently, the potential contribution from DNA methylation – a heritable chemical modification of DNA capable of influencing gene expression. Here, we systematically investigate the potential molecular underpinnings of physiological priming against recurring excess light (EL), specifically DNA methylation and transcriptional regulation: the latter having not been examined with respect to EL priming. The capacity for physiological priming of photosynthetic and photoprotective parameters following a recurring EL treatment was not impaired in Arabidopsis mutants with perturbed establishment, maintenance and removal of DNA methylation, nor was the transmission of this priming into naive tissues developed in the absence of excess light. Importantly, no differences in developmental or basal photoprotective capacity were identified in the mutants that may confound the above result. Little evidence for a causal transcriptional component of physiological priming was identified; in fact, most alterations in primed plants presented as a transcriptional ‘dampening’ in response to an additional EL exposure, likely a consequential of physiological priming. However, a set of transcripts uniquely regulated in primed plants provide preliminary evidence for a novel transcriptional component of recurring EL priming, independent of physiological changes. Thus, we propose that physiological priming of recurring EL in Arabidopsis occurs independently of DNA methylation; and that the majority of the associated transcriptional alterations are a consequence, not cause, of this physiological priming.
Overall design Experiments were performed using recurring excess-light treatments on Arabidopsis thaliana. MethylC-seq was performed on 3 replicates of unstressed Col-0 and strs2 plants. RNA-seq was performed on 3 replicates of naïve, naïve-triggered, primed, and primed-triggered plants.
Contributor(s) Ganguly DR, Stone BA, Bowerman AF, Eichten SR, Pogson BJ
Citation(s) 31484672
Bethany AB Stone, Diep R Ganguly, Steven R Eichten, Barry J Pogson. Excess light priming in Arabidopsis thaliana with altered DNA methylomes. bioRxiv 475798; doi:10.1101/475798
Submission date Oct 11, 2018
Last update date Sep 19, 2019
Contact name Diep R Ganguly
Phone +1 215-898-0808
Organization name University of Pennsylvania
Department Department of Biology
Lab Brian Gregory
Street address 433 S University Ave
City Philadelphia
State/province PA
ZIP/Postal code 19103
Country USA
Platforms (1)
GPL19580 Illumina NextSeq 500 (Arabidopsis thaliana)
Samples (18)
GSM3426988 MethylC WT rep 1
GSM3426989 MethylC WT rep 2
GSM3426990 MethylC WT rep 3
BioProject PRJNA495850
SRA SRP165229

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Supplementary file Size Download File type/resource
GSE121150_RAW.tar 1.2 Gb (http)(custom) TAR (of BED, TXT)
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Raw data are available in SRA
Processed data provided as supplementary file

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