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Series GSE46253 Query DataSets for GSE46253
Status Public on Apr 23, 2013
Title Identification of drought stress-responsive transcription factor in ramie (Boehmeria nivea L.Gaud)
Organism Boehmeria nivea
Experiment type Expression profiling by high throughput sequencing
Summary Drought is a main environment stress which severely inhibits the stem growth of ramie and lead to a decrease of the fiber yield. The mechanisms of ramie responding to drought stress are poorly understood. Using Illumina sequencing, approximately 4.8 million (M) 21-nt cDNA tags were sequenced in the cDNA library derived from the drought-stressed ramie (DS), and about 4.7 M were sequenced in the cDNA library constructed from the control ramie under well water condition (CO). The tags generated from two libraries were aligned with ramie transcriptome to annotate their function and a total of 23,912 and 22,826 ramie genes were matched by these tags of DS and CO library, respectively. Comparison of gene expression level between CO and DS ramie based on the differences of tag frequencies appearing in two libraries revealed that 1101 and 505 genes were respectively up- and down- regulated under drought stress. Pathway enrichment analysis identified a set of significantly enriched pathways of DEGs. A series of candidate genes and pathways that may contribute to drought tolerance in ramie will be helpful for further improving ramie drought tolerance ability.
 
Overall design 3' tag-based DGE libraries were generated to exam the differentially expressed gene between drought-stressed and well-watered ramie
 
Contributor(s) Liu T
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Submission date Apr 22, 2013
Last update date May 15, 2019
Contact name Touming Liu
E-mail(s) liutouming@caas.cn
Phone 86 731 88998580
Organization name Chinese Academy of Agricultural Sciences
Department Institute of Bast Fiber Crops
Street address NO.348, western road of xianjia lake
City Changsha
ZIP/Postal code 410205
Country China
 
Platforms (1)
GPL17045 Illumina HiSeq 2000 (Boehmeria nivea)
Samples (2)
GSM1127036 control CO
GSM1127037 drought-stressed DS
Relations
BioProject PRJNA198470
SRA SRP021458

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE46253_RAW.tar 4.1 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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