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| Status |
Public on Oct 23, 2020 |
| Title |
Role of H1 and DNA methylation in selective regulation of transposable elements during heat stress |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Expression profiling by high throughput sequencing
Methylation profiling by high throughput sequencing
|
| Summary |
Heat stressed Arabidopsis plants release heterochromatin-associated transposable element (TE) silencing, which however is not accompanied by major reductions of epigenetic repressive modifications. In this study, we explored the functional role of histone H1 in repressing heterochromatic TEs in response to heat stress. Loss of H1 caused activation of pericentromeric GYPSY elements upon heat treatment, despite that these elements remained highly methylated. In contrast, non-pericentromeric COPIA elements became activated concomitantly with loss of DNA methylation. The same COPIA elements became activated in heat-treated chromomethylase2 (cmt2) mutants, indicating that H1 represses COPIA elements through maintaining DNA methylation under heat. We discovered that H1 is required for TE repression in response to heat stress, but its functional role differs depending on TE location. Strikingly, H1 deficient plants treated with the DNA methyltransferase inhibitor zebularine were highly tolerant to heat stress, suggesting that both, H1 and DNA methylation redundantly suppress the plant response to heat stress.
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| Overall design |
We generated and analyzed RNA and bisulfite-sequencing data of wild-type, h1, and cmt2 mutant seedlings before and after heat stress.
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| Contributor(s) |
Liu S, De Jonge J, Trejo-Arellano MS, Santos-González J, Köhler C, Hennig L |
| Citation(s) |
33091182 |
| |
| Submission date |
Jun 12, 2020 |
| Last update date |
Oct 23, 2020 |
| Contact name |
Minerva Susana Trejo Arellano |
| E-mail(s) |
Minerva.Trejo-Arellano@jic.ac.uk
|
| Organization name |
SLU
|
| Department |
Plant Biology
|
| Lab |
Lars Hennig's Lab
|
| Street address |
Almas Allé 5
|
| City |
Uppsala |
| State/province |
Uppsala |
| ZIP/Postal code |
75007 |
| Country |
Sweden |
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| Platforms (1) |
| GPL17639 |
Illumina HiSeq 2500 (Arabidopsis thaliana) |
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| Samples (25)
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| Relations |
| BioProject |
PRJNA639271 |
| SRA |
SRP267173 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE152402_DESeq_Col_trt_vs_untrt_df_TE.txt.gz |
935.1 Kb |
(ftp)(http) |
TXT |
| GSE152402_DESeq_cmt2_trt_Col_untrt_df_TEs.txt.gz |
822.7 Kb |
(ftp)(http) |
TXT |
| GSE152402_DESeq_cmt2_trt_Col_untrt_df_genes.txt.gz |
3.1 Mb |
(ftp)(http) |
TXT |
| GSE152402_DESeq_cmt2_trt_vs_untrt_df_TE.txt.gz |
814.1 Kb |
(ftp)(http) |
TXT |
| GSE152402_DESeq_cmt2_vs_Col_trt_df_TEs.txt.gz |
441.9 Kb |
(ftp)(http) |
TXT |
| GSE152402_DESeq_cmt2_vs_Col_trt_df_genes.txt.gz |
3.2 Mb |
(ftp)(http) |
TXT |
| GSE152402_DESeq_cmt2_vs_Col_untrt_df_TEs.txt.gz |
403.3 Kb |
(ftp)(http) |
TXT |
| GSE152402_DESeq_cmt2_vs_Col_untrt_df_genes.txt.gz |
3.2 Mb |
(ftp)(http) |
TXT |
| GSE152402_DESeq_h1.1h1.2_trt_Col_untrt_df_TEs.txt.gz |
1.0 Mb |
(ftp)(http) |
TXT |
| GSE152402_DESeq_h1.1h1.2_trt_Col_untrt_df_genes.txt.gz |
3.2 Mb |
(ftp)(http) |
TXT |
| GSE152402_DESeq_h1.1h1.2_trt_vs_untrt_df_TE.txt.gz |
995.3 Kb |
(ftp)(http) |
TXT |
| GSE152402_DESeq_h1.1h1.2_vs_Col_trt_df_TEs.txt.gz |
531.0 Kb |
(ftp)(http) |
TXT |
| GSE152402_DESeq_h1.1h1.2_vs_Col_trt_df_genes.txt.gz |
2.6 Mb |
(ftp)(http) |
TXT |
| GSE152402_DESeq_h1.1h1.2_vs_Col_untrt_df_TEs.txt.gz |
382.6 Kb |
(ftp)(http) |
TXT |
| GSE152402_DESeq_h1.1h1.2_vs_Col_untrt_df_genes.txt.gz |
2.4 Mb |
(ftp)(http) |
TXT |
| GSE152402_h1_MX_CG.txt.gz |
28.4 Mb |
(ftp)(http) |
TXT |
| GSE152402_h1_MX_CHG.txt.gz |
30.1 Mb |
(ftp)(http) |
TXT |
| GSE152402_h1_MX_CHH.txt.gz |
149.8 Mb |
(ftp)(http) |
TXT |
| GSE152402_h1_heat_MX_CG.txt.gz |
28.5 Mb |
(ftp)(http) |
TXT |
| GSE152402_h1_heat_MX_CHG.txt.gz |
30.2 Mb |
(ftp)(http) |
TXT |
| GSE152402_h1_heat_MX_CHH.txt.gz |
149.7 Mb |
(ftp)(http) |
TXT |
| GSE152402_wt_MX_CG.txt.gz |
28.7 Mb |
(ftp)(http) |
TXT |
| GSE152402_wt_MX_CHG.txt.gz |
30.4 Mb |
(ftp)(http) |
TXT |
| GSE152402_wt_MX_CHH.txt.gz |
151.2 Mb |
(ftp)(http) |
TXT |
| GSE152402_wt_heat_MX_CG.txt.gz |
27.9 Mb |
(ftp)(http) |
TXT |
| GSE152402_wt_heat_MX_CHG.txt.gz |
29.4 Mb |
(ftp)(http) |
TXT |
| GSE152402_wt_heat_MX_CHH.txt.gz |
146.1 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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