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Series GSE171536

Query DataSets for GSE171536

Status

Public on Sep 08, 2023

Title

Pathogen induced m6A dynamics regulate plant immunity

Organism

Arabidopsis thaliana

Experiment type

Other
Expression profiling by high throughput sequencing

Summary

Post-transcriptional regulation of mRNA mediated by methylation at the N6 position of adenine (N6-methyladenosine (m6A)) can have profound effects on transcriptome regulation in plants. Focused studies across eukaryotes offer glimpses into the processes governed by m6A throughout developmental and disease states. However, we lack an understanding of the dynamics and scope of regulatory potential m6A possesses during biotic stress responses in plants. Here, we provide a comprehensive look into the effects m6A has on both the short-term and long-term response to pathogenic stress in Arabidopsis. m6A deposition influences transcript abundance and stability on populations of stress-responsive transcripts. Additionally, we demonstrate a time- and stress-dependent modulation of m6A highlighting specific stress-responsive transcripts regulated directly and indirectly by this mark. As a result, m6A deficient plants are more resistant to bacterial pathogen Pseudomonas syringae infection, and this mark is essential in dictating and coordinating transcript fate during a biotic stress reprograming event. Overall, we show m6A is a critical aspect in modulating the post-transcriptional regulation of the transcriptome in response to pathogenic stress in plants.

Overall design

3 Replicates GMUCT seq on 14day old seedlings, 3 Replicates mRNA seq flg22-treated 14day old seedling, 3 Replicates 14day old seedlings m6A IP, 3 Replicates m6A IP pair-end P.syringae maculicola-treated 4 week old leaves, 3 Replicates of mRNA seq pair-end P.syringae maculicola-treated 4 week old leaves

Contributor(s)

Prall W, Sheikh AH, Bazin J, Bigeard J, Almeida-Trapp M, Crespi M, Hirt H, Gregory BD

Citation(s)

Submission date

Apr 05, 2021

Last update date

Dec 11, 2023

Contact name

Brian D Gregory

E-mail(s)

bdgregor@sas.upenn.edu

Organization name

University of Pennsylvania

Department

Biology

Lab

Gregory Lab Lynch 104

Street address

433 South University Avenue

City

Philadelphia

State/province

PA

ZIP/Postal code

19104

Country

USA

Platforms (1)

Illumina HiSeq 4000 (Arabidopsis thaliana)

Samples (75)

More...

GSM6932903	Pst_Col_m6A_pls_00_R1
GSM6932904	Pst_Col_m6A_pls_00_R2
GSM6932905	Pst_Col_m6A_pls_00_R3

Relations

BioProject

SRA

Download family	Format
SOFT formatted family file(s)	SOFT
MINiML formatted family file(s)	MINiML
Series Matrix File(s)	TXT

Supplementary file	Size	Download	File type/resource
GSE171536_35SALKBH10B_GT_0hr_PropUncapped.raw.txt.gz	258.0 Kb	(ftp)(http)	TXT
GSE171536_35SALKBH10B_GT_1_2_C_0hr_pairedAligned.htseq.RPM.txt.gz	198.0 Kb	(ftp)(http)	TXT
GSE171536_35SALKBH10B_GT_1_2_F_4hr_pairedAligned.htseq.RPM.txt.gz	184.9 Kb	(ftp)(http)	TXT
GSE171536_35SALKBH10B_GT_2_2_C_0hr_pairedAligned.htseq.RPM.txt.gz	194.7 Kb	(ftp)(http)	TXT
GSE171536_35SALKBH10B_GT_2_2_F_4hr_pairedAligned.htseq.RPM.txt.gz	178.5 Kb	(ftp)(http)	TXT
GSE171536_35SALKBH10B_GT_3_2_C_0hr_pairedAligned.htseq.RPM.txt.gz	207.9 Kb	(ftp)(http)	TXT
GSE171536_35SALKBH10B_GT_3_2_F_4hr_pairedAligned.htseq.RPM.txt.gz	206.4 Kb	(ftp)(http)	TXT
GSE171536_35SALKBH10B_GT_4hr_PropUncapped.raw.txt.gz	257.1 Kb	(ftp)(http)	TXT
GSE171536_35SALKBH10B_m6_1_C_0hr_MACS.minu_peaks.narrowPeak.gz	215.1 Kb	(ftp)(http)	NARROWPEAK
GSE171536_35SALKBH10B_m6_1_C_0hr_MACS.plus_peaks.narrowPeak.gz	207.1 Kb	(ftp)(http)	NARROWPEAK
GSE171536_35SALKBH10B_m6_1_F_4hr_MACS.minu_peaks.narrowPeak.gz	168.0 Kb	(ftp)(http)	NARROWPEAK
GSE171536_35SALKBH10B_m6_1_F_4hr_MACS.plus_peaks.narrowPeak.gz	166.8 Kb	(ftp)(http)	NARROWPEAK
GSE171536_35SALKBH10B_m6_2_C_0hr_MACS.minu_peaks.narrowPeak.gz	169.9 Kb	(ftp)(http)	NARROWPEAK
GSE171536_35SALKBH10B_m6_2_C_0hr_MACS.plus_peaks.narrowPeak.gz	173.1 Kb	(ftp)(http)	NARROWPEAK
GSE171536_35SALKBH10B_m6_2_F_4hr_MACS.minu_peaks.narrowPeak.gz	183.7 Kb	(ftp)(http)	NARROWPEAK
GSE171536_35SALKBH10B_m6_2_F_4hr_MACS.plus_peaks.narrowPeak.gz	186.5 Kb	(ftp)(http)	NARROWPEAK
GSE171536_35SALKBH10B_m6_3_C_0hr_MACS.minu_peaks.narrowPeak.gz	164.6 Kb	(ftp)(http)	NARROWPEAK
GSE171536_35SALKBH10B_m6_3_C_0hr_MACS.plus_peaks.narrowPeak.gz	165.0 Kb	(ftp)(http)	NARROWPEAK
GSE171536_35SALKBH10B_m6_3_F_4hr_MACS.minu_peaks.narrowPeak.gz	147.7 Kb	(ftp)(http)	NARROWPEAK
GSE171536_35SALKBH10B_m6_3_F_4hr_MACS.plus_peaks.narrowPeak.gz	149.5 Kb	(ftp)(http)	NARROWPEAK
GSE171536_COL_GT_0hr_PropUncapped.raw.txt.gz	263.5 Kb	(ftp)(http)	TXT
GSE171536_COL_GT_1_2_C_0hr_pairedAligned.htseq.RPM.txt.gz	238.7 Kb	(ftp)(http)	TXT
GSE171536_COL_GT_1_2_F_4hr_pairedAligned.htseq.RPM.txt.gz	186.8 Kb	(ftp)(http)	TXT
GSE171536_COL_GT_2_2_C_0hr_pairedAligned.htseq.RPM.txt.gz	155.8 Kb	(ftp)(http)	TXT
GSE171536_COL_GT_2_2_F_4hr_pairedAligned.htseq.RPM.txt.gz	218.5 Kb	(ftp)(http)	TXT
GSE171536_COL_GT_3_2_C_0hr_pairedAligned.htseq.RPM.txt.gz	221.8 Kb	(ftp)(http)	TXT
GSE171536_COL_GT_3_2_F_4hr_pairedAligned.htseq.RPM.txt.gz	211.1 Kb	(ftp)(http)	TXT
GSE171536_COL_GT_4hr_PropUncapped.raw.txt.gz	257.8 Kb	(ftp)(http)	TXT
GSE171536_COL_m6_1_F_4hr_MACS.minu_peaks.narrowPeak.gz	186.6 Kb	(ftp)(http)	NARROWPEAK
GSE171536_COL_m6_1_F_4hr_MACS.plus_peaks.narrowPeak.gz	188.5 Kb	(ftp)(http)	NARROWPEAK
GSE171536_COL_m6_2_C_0hr_MACS.minu_peaks.narrowPeak.gz	187.3 Kb	(ftp)(http)	NARROWPEAK
GSE171536_COL_m6_2_C_0hr_MACS.plus_peaks.narrowPeak.gz	189.8 Kb	(ftp)(http)	NARROWPEAK
GSE171536_COL_m6_2_F_4hr_MACS.minu_peaks.narrowPeak.gz	207.1 Kb	(ftp)(http)	NARROWPEAK
GSE171536_COL_m6_2_F_4hr_MACS.plus_peaks.narrowPeak.gz	210.0 Kb	(ftp)(http)	NARROWPEAK
GSE171536_COL_m6_3_C_0hr_MACS.minu_peaks.narrowPeak.gz	173.0 Kb	(ftp)(http)	NARROWPEAK
GSE171536_COL_m6_3_C_0hr_MACS.plus_peaks.narrowPeak.gz	174.9 Kb	(ftp)(http)	NARROWPEAK
GSE171536_COL_m6_3_F_4hr_MACS.minu_peaks.narrowPeak.gz	163.5 Kb	(ftp)(http)	NARROWPEAK
GSE171536_COL_m6_3_F_4hr_MACS.plus_peaks.narrowPeak.gz	166.2 Kb	(ftp)(http)	NARROWPEAK
GSE171536_MTA_GT_0hr_PropUncapped.raw.txt.gz	264.7 Kb	(ftp)(http)	TXT
GSE171536_MTA_GT_1_2_C_0hr_pairedAligned.htseq.RPM.txt.gz	215.5 Kb	(ftp)(http)	TXT
GSE171536_MTA_GT_1_2_F_4hr_pairedAligned.htseq.RPM.txt.gz	224.5 Kb	(ftp)(http)	TXT
GSE171536_MTA_GT_2_2_C_0hr_pairedAligned.htseq.RPM.txt.gz	206.8 Kb	(ftp)(http)	TXT
GSE171536_MTA_GT_2_2_F_4hr_pairedAligned.htseq.RPM.txt.gz	217.9 Kb	(ftp)(http)	TXT
GSE171536_MTA_GT_3_2_C_0hr_pairedAligned.htseq.RPM.txt.gz	219.4 Kb	(ftp)(http)	TXT
GSE171536_MTA_GT_3_2_F_4hr_pairedAligned.htseq.RPM.txt.gz	227.4 Kb	(ftp)(http)	TXT
GSE171536_MTA_GT_4hr_PropUncapped.raw.txt.gz	264.1 Kb	(ftp)(http)	TXT
GSE171536_MTA_m6_1_C_0hr_MACS.minu_peaks.narrowPeak.gz	196.5 Kb	(ftp)(http)	NARROWPEAK
GSE171536_MTA_m6_1_C_0hr_MACS.plus_peaks.narrowPeak.gz	196.6 Kb	(ftp)(http)	NARROWPEAK
GSE171536_MTA_m6_1_F_4hr_MACS.minu_peaks.narrowPeak.gz	206.6 Kb	(ftp)(http)	NARROWPEAK
GSE171536_MTA_m6_1_F_4hr_MACS.plus_peaks.narrowPeak.gz	207.9 Kb	(ftp)(http)	NARROWPEAK
GSE171536_MTA_m6_2_C_0hr_MACS.minu_peaks.narrowPeak.gz	203.0 Kb	(ftp)(http)	NARROWPEAK
GSE171536_MTA_m6_2_C_0hr_MACS.plus_peaks.narrowPeak.gz	201.4 Kb	(ftp)(http)	NARROWPEAK
GSE171536_MTA_m6_2_F_4hr_MACS.minu_peaks.narrowPeak.gz	143.1 Kb	(ftp)(http)	NARROWPEAK
GSE171536_MTA_m6_2_F_4hr_MACS.plus_peaks.narrowPeak.gz	147.1 Kb	(ftp)(http)	NARROWPEAK
GSE171536_MTA_m6_3_C_0hr_MACS.minu_peaks.narrowPeak.gz	208.1 Kb	(ftp)(http)	NARROWPEAK
GSE171536_MTA_m6_3_C_0hr_MACS.plus_peaks.narrowPeak.gz	199.7 Kb	(ftp)(http)	NARROWPEAK
GSE171536_MTA_m6_3_F_4hr_MACS.minu_peaks.narrowPeak.gz	182.5 Kb	(ftp)(http)	NARROWPEAK
GSE171536_MTA_m6_3_F_4hr_MACS.plus_peaks.narrowPeak.gz	184.2 Kb	(ftp)(http)	NARROWPEAK
GSE171536_Pst_Col_m6A_pls_00_R1_TrimmedAligned.m6A.minu.p1_peaks.narrowPeak.gz	328.7 Kb	(ftp)(http)	NARROWPEAK
GSE171536_Pst_Col_m6A_pls_00_R1_TrimmedAligned.m6A.plus.p1_peaks.narrowPeak.gz	328.7 Kb	(ftp)(http)	NARROWPEAK
GSE171536_Pst_Col_m6A_pls_00_R2_TrimmedAligned.m6A.minu.p1_peaks.narrowPeak.gz	269.7 Kb	(ftp)(http)	NARROWPEAK
GSE171536_Pst_Col_m6A_pls_00_R2_TrimmedAligned.m6A.plus.p1_peaks.narrowPeak.gz	267.7 Kb	(ftp)(http)	NARROWPEAK
GSE171536_Pst_Col_m6A_pls_00_R3_TrimmedAligned.m6A.minu.p1_peaks.narrowPeak.gz	221.1 Kb	(ftp)(http)	NARROWPEAK
GSE171536_Pst_Col_m6A_pls_00_R3_TrimmedAligned.m6A.plus.p1_peaks.narrowPeak.gz	216.6 Kb	(ftp)(http)	NARROWPEAK
GSE171536_Pst_Col_m6A_pls_24_R1_TrimmedAligned.m6a.minu.p1_peaks.narrowPeak.gz	321.1 Kb	(ftp)(http)	NARROWPEAK
GSE171536_Pst_Col_m6A_pls_24_R1_TrimmedAligned.m6a.plus.p1_peaks.narrowPeak.gz	314.8 Kb	(ftp)(http)	NARROWPEAK
GSE171536_Pst_Col_m6A_pls_24_R2_TrimmedAligned.m6a.minu.p1_peaks.narrowPeak.gz	271.4 Kb	(ftp)(http)	NARROWPEAK
GSE171536_Pst_Col_m6A_pls_24_R2_TrimmedAligned.m6a.plus.p1_peaks.narrowPeak.gz	268.5 Kb	(ftp)(http)	NARROWPEAK
GSE171536_Pst_Col_m6A_pls_24_R3_TrimmedAligned.m6a.minu.p1_peaks.narrowPeak.gz	247.0 Kb	(ftp)(http)	NARROWPEAK
GSE171536_Pst_Col_m6A_pls_24_R3_TrimmedAligned.m6a.plus.p1_peaks.narrowPeak.gz	246.2 Kb	(ftp)(http)	NARROWPEAK
GSE171536_Pst_Col_mRNAseq_00_R1.htseq.txt.gz	209.5 Kb	(ftp)(http)	TXT
GSE171536_Pst_Col_mRNAseq_00_R2.htseq.txt.gz	206.0 Kb	(ftp)(http)	TXT
GSE171536_Pst_Col_mRNAseq_00_R3.htseq.txt.gz	207.3 Kb	(ftp)(http)	TXT
GSE171536_Pst_Col_mRNAseq_24_R1.htseq.txt.gz	207.1 Kb	(ftp)(http)	TXT
GSE171536_Pst_Col_mRNAseq_24_R2.htseq.txt.gz	208.5 Kb	(ftp)(http)	TXT
GSE171536_Pst_Col_mRNAseq_24_R3.htseq.txt.gz	207.6 Kb	(ftp)(http)	TXT
GSE171536_Pst_MTA_m6A_pls_00_R1_TrimmedAligned.m6a.minu.p1_peaks.narrowPeak.gz	285.6 Kb	(ftp)(http)	NARROWPEAK
GSE171536_Pst_MTA_m6A_pls_00_R1_TrimmedAligned.m6a.plus.p1_peaks.narrowPeak.gz	281.8 Kb	(ftp)(http)	NARROWPEAK
GSE171536_Pst_MTA_m6A_pls_00_R2_TrimmedAligned.m6a.minu.p1_peaks.narrowPeak.gz	225.9 Kb	(ftp)(http)	NARROWPEAK
GSE171536_Pst_MTA_m6A_pls_00_R2_TrimmedAligned.m6a.plus.p1_peaks.narrowPeak.gz	225.3 Kb	(ftp)(http)	NARROWPEAK
GSE171536_Pst_MTA_m6A_pls_00_R3_TrimmedAligned.m6a.minu.p1_peaks.narrowPeak.gz	173.2 Kb	(ftp)(http)	NARROWPEAK
GSE171536_Pst_MTA_m6A_pls_00_R3_TrimmedAligned.m6a.plus.p1_peaks.narrowPeak.gz	176.4 Kb	(ftp)(http)	NARROWPEAK
GSE171536_Pst_MTA_mRNAseq_00_R1.htseq.txt.gz	205.7 Kb	(ftp)(http)	TXT
GSE171536_Pst_MTA_mRNAseq_00_R2.htseq.txt.gz	205.6 Kb	(ftp)(http)	TXT
GSE171536_Pst_MTA_mRNAseq_00_R3.htseq.txt.gz	205.3 Kb	(ftp)(http)	TXT
GSE171536_Pst_MTA_mRNAseq_24_R1.htseq.txt.gz	205.2 Kb	(ftp)(http)	TXT
GSE171536_Pst_MTA_mRNAseq_24_R2.htseq.txt.gz	207.0 Kb	(ftp)(http)	TXT
GSE171536_Pst_MTA_mRNAseq_24_R3.htseq.txt.gz	211.0 Kb	(ftp)(http)	TXT
GSE171536_flg22_mRNAseq_FeatureCount.txt.gz	2.2 Mb	(ftp)(http)	TXT
SRA Run Selector
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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