Data from: Stress induced gene expression drives transient DNA methylation changes at adjacent repetitive elements

Secco D, Wang C, Shou H, Schultz MD, Chiarenza S, Nussaume L, Ecker JR, Whelan J, Lister R

Date Published: August 6, 2015

DOI: http://dx.doi.org/10.5061/dryad.40gd6

 

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Title Figure 1-source data 1
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Description Figure 1-source data 1: FPKM and fold change of all genes in rice roots and shoots upon Pi treatments.
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Title Figure 2-source data 1
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Description Figure 2-source data 1: List of 175 PSI DMRs identified in the root, with DNA methylation levels and transcription levels of DMR-associated genes.
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Title Figure 2-source data 2
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Description Figure 2-source data 2: Transcription levels of TEs overlapping PSI DMRS after 7 d and 21 d of Pi deprivation.
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Title Figure 2-source data 3
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Description Figure 2-source data 3: List of 341 PSI DMRs identified in the shoots, with DNA methylation levels and transcription levels of DMR-associated genes.
Download Figure 2-source data 3.xlsx (55.15 Kb)
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Title Figure 3-source data 1
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Description Figure 3-source data 1: Levels of DNA methylation and FDR values for the 100 PSI DMRs associated with changes in proximal gene transcription.
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Title Figure 4-source data 1
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Description Figure 4-source data 1: List of 14 root persisting PSI DMRs, despite 31 d of Pi resupply.
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Title Figure 4-source data 2
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Description Figure 4-source data 2: List of 36 panicle PSI DMRs.
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Title Figure 4-source data 3
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Description Figure 4-source data 3: Average methylation levels observed in the roots of the progeny of stressed- and non-stressed plants in all contexts and methylation levels for each replicate in CNN in the 175 root PSI DMRs.
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Title Figure 5-source data 1
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Description Figure 5-source data 1: FPKM and fold change of all genes between WT +Pi and DCL3a RNAi line +Pi as well as WT -Pi and DCL3a RNAi line -Pi (FDR < 0.05). List of DMRs identified between WT +Pi and DCL3a RNAi line +Pi as well as WT -Pi and DCL3a RNAi line -Pi is shown as well as the average methylation levels observed in all samples (FDR < 0.05).
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Title Figure 5-source data 2
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Description Figure 5-source data 2: 11 DCL3a-dependant PSI DMRs, with methylation levels and associated gene transcription.
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Title Figure 6-source data 1
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Description Figure 6-source data 1: FPKM and fold change of all genes in Arabidopsis roots upon Pi starvation.
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Title Figure 5-source data 3
Downloaded 43 times
Description 409 PSI DMRs in the DCL3a RNAi line, and 88 PSI DMRs in the DCL3a RNAi line, associated with significant changes in nearby gene expression
Download Figure 5-source data 3.xlsx (39.49 Kb)
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When using this data, please cite the original publication:

Secco D, Wang C, Shou H, Schultz MD, Chiarenza S, Nussaume L, Ecker JR, Whelan J, Lister R (2015) Stress induced gene expression drives transient DNA methylation changes at adjacent repetitive elements. eLife: e09343. http://dx.doi.org/10.7554/eLife.09343

Additionally, please cite the Dryad data package:

Secco D, Wang C, Shou H, Schultz MD, Chiarenza S, Nussaume L, Ecker JR, Whelan J, Lister R (2015) Data from: Stress induced gene expression drives transient DNA methylation changes at adjacent repetitive elements. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.40gd6
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