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Series GSE161625 Query DataSets for GSE161625
Status Public on Jul 01, 2021
Title Nurse cell­-derived small RNAs define paternal epigenetic inheritance in Arabidopsis
Organism Arabidopsis thaliana
Experiment type Methylation profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Non-coding RNA profiling by high throughput sequencing
Summary We report here that gentic methylation in the male germline, from meiocytes to sperm, is established by siRNAs transcribed from transposons with imperfect sequence homology. These siRNAs are synthesized by meiocyte nurse cells (tapetum) via activity of the chromatin remodeler CLASSY3, which is specifically expressed in tapetal cells. Plants that produce siRNAs only in the tapetum have broadly normal DNA methylation of the entire germline. Finally, we also report that these nurse cell-derived siRNAs (niRNAs) silence germline transposons, thereby safeguarding genome integrity. Our results reveal the crucial role of tapetal niRNAs in germline methylation reprogramming, which is remarkably analogous to piRNA-mediated reprogramming in animal germlines.
 
Overall design Profiling of methylome and sRNAome in meiocyte and tapetum in Arabidopsis
 
Contributor(s) Long J, Walker J, She W, Aldridge B, Gao H, Deans S, Vickers M, Feng X
Citation(s) 34210850
Submission date Nov 17, 2020
Last update date Jul 05, 2021
Contact name Xiaoqi Feng
E-mail(s) xiaoqi.feng@jic.ac.uk
Organization name John Innes Centre
Department Cell and Developmental Biology
Lab Xiaoqi Feng
Street address Norwich Research Park
City Norwich
State/province Norfolk
ZIP/Postal code NR4 7UH
Country United Kingdom
 
Platforms (1)
GPL19580 Illumina NextSeq 500 (Arabidopsis thaliana)
Samples (61)
GSM4911344 rdr2_meiocyte_rep1_scBS-seq
GSM4911345 rdr2_meiocyte_rep2_scBS-seq
GSM4911346 pTP::RDR2 rdr2 line1 meiocyte_BS-seq
Relations
BioProject PRJNA678965
SRA SRP292913

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Supplementary file Size Download File type/resource
GSE161625_RAW.tar 5.7 Gb (http)(custom) TAR (of GFF)
GSE161625_WT_pollen_3reps_combined_no_rRNA_RNA_seq.log2_RPKM_w50.gff.gz 4.8 Mb (ftp)(http) GFF
GSE161625_WT_tapetum_3reps_combined_no_rRNA_RNA_seq.log2_RPKM_w50.gff.gz 4.7 Mb (ftp)(http) GFF
GSE161625_WT_tapetum_3reps_merged_sorted_dedup.CG.w1.gff.gz 33.3 Mb (ftp)(http) GFF
GSE161625_WT_tapetum_3reps_merged_sorted_dedup.CHG.w1.gff.gz 36.5 Mb (ftp)(http) GFF
GSE161625_WT_tapetum_3reps_merged_sorted_dedup.CHH.w1.gff.gz 151.4 Mb (ftp)(http) GFF
GSE161625_drm_pollen_3reps_combined_no_rRNA_RNA_seq.log2_RPKM_w50.gff.gz 6.1 Mb (ftp)(http) GFF
GSE161625_drm_tapetum_3reps_combined_no_rRNA_RNA_seq.log2_RPKM_w50.gff.gz 2.6 Mb (ftp)(http) GFF
GSE161625_rdr2_tapetum_3reps_merged_sorted_dedup.CG.w1.gff.gz 35.1 Mb (ftp)(http) GFF
GSE161625_rdr2_tapetum_3reps_merged_sorted_dedup.CHG.w1.gff.gz 38.2 Mb (ftp)(http) GFF
GSE161625_rdr2_tapetum_3reps_merged_sorted_dedup.CHH.w1.gff.gz 160.8 Mb (ftp)(http) GFF
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Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record
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