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Series GSE102919 Query DataSets for GSE102919
Status Public on Feb 14, 2018
Title Genome-wide analyses of direct target genes of four rice NAC-domain transcription factors involved in drought tolerance [RNA-seq]
Organism Oryza sativa
Experiment type Expression profiling by high throughput sequencing
Summary To understand the molecular mechanisms of drought tolerance, we performed ChIP-Seq and RNA-Seq analyses to identify direct target genes of the OsNACs using the RCc3:MYC-OsNACs roots. A total of 475 binding loci of 4 OsNACs were identified by cross-referencing the binding occupancy of OsNACs at promoter regions and expression levels of corresponding genes. The binding loci are distributed on promoter regions of 391 target genes that were directly up-regulated by OsNACs in four RCc3:MYC-OsNAC transgenic roots. The direct target genes were related to transmembrane/transporter activity, vesicle, plant hormone, carbohydrate metabolism, and transcription factors. The direct targets of each OsNAC are in a range of 4.0 to 8.7% of the genes up-regulated in RNA-Seq data sets. Thus, each OsNAC up-regulates of corresponding direct target genes that alters root system architectures of RCc3:OsNACs for drought tolerance.
 
Overall design RNA-seq using roots of NT (nontransgenic plants), RCc3:myc-OsNAC5, 6, 9, and 10 transgenic plants that were generated by deep sequencing using Illumina Hiseq 2500.
 
Contributor(s) Chung PJ, Kim J
Citation(s) 29329517
Submission date Aug 22, 2017
Last update date May 15, 2019
Contact name Pil Joong Chung
E-mail(s) chungpj@gmail.com
Organization name Seoul National University
Department Crop Biotechnology Institute
Lab Crop Biotechnology Lab
Street address Pyeongchang daero 1447
City Pyeongchang
State/province Gangwondo
ZIP/Postal code 232-916
Country South Korea
 
Platforms (1)
GPL19290 Illumina HiSeq 2500 (Oryza sativa)
Samples (10)
GSM2748265 nontransgenic control_1
GSM2748266 RCc3:myc-OsNAC5_1
GSM2748267 RCc3:OsNAC6-myc_1
This SubSeries is part of SuperSeries:
GSE102921 Genome-wide analyses of direct target genes of four rice NAC-domain transcription factors involved in drought tolerance
Relations
BioProject PRJNA399279
SRA SRP115928

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Supplementary file Size Download File type/resource
GSE102919_AnnoOnly_FPKM_from_all_samples_in_other.addDesc.txt.gz 2.4 Mb (ftp)(http) TXT
GSE102919_AnnoOnly_FPKM_from_all_samples_in_other.txt.gz 1.8 Mb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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