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Series GSE196295 Query DataSets for GSE196295
Status Public on Jul 23, 2023
Title ChIP-Seq analysis of switchgrass transcriptome in response to single drought and combinations of drought and heat stress
Organism Panicum virgatum
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary The combined heat and drought stress influence the plant growth and development. Switchgrass is an economically important crop due to the availability of high biomass with little water and nutrient requirements. Earlier reports suggested that switchgrass growth and yield highly influenced by heat and drought. The mechanism behind heat and drought stress is not fully understood in switchgrass. This study has undertaken to analyze the epigenetic modification using ChIP-Seq analysis with the activation histone mark H3K4me3.
Conclusion: Our study provides the first epigenomic analysis of heat and drought response in switchgrass. This comprehensive resource will provide other epigenomic regulated information in non-model plant species.
 
Overall design Method: We conducted solely drought treatment in switchgrass plant Alamo AP13 by withholding water after 45 days of growing. For the combination of drought and heat effect, heat treatment (35 °C/25 °C day/night) was imposed after 72 h of the initiation of drought. Samples were collected at 0 h, 72 h, 96 h, 120 h, 144 h, and 168 h after treatment imposition, genomic DNAwas extracted, and ChIP-Seq conducted.
 
Contributor(s) Ayyappan V, Xie S, Saha MC, Hayford R, Serba DD, Sripathi VR, Sripathi M, Thimmapuram J, Kalavacharla V
Citation(s) 38424499
Submission date Feb 07, 2022
Last update date Mar 05, 2024
Contact name Shaojun Xie
E-mail(s) [email protected]
Phone 7657140672
Organization name Purdue University
Street address 3135 Decatur Street
City WEST LAFAYETTE
State/province Indiana
ZIP/Postal code 47906
Country USA
 
Platforms (1)
GPL31915 Illumina NextSeq 500 (Panicum virgatum)
Samples (63)
GSM5869990 C0hRep1 [ChIP-seq]
GSM5869991 C0hRep2 [ChIP-seq]
GSM5869992 C0hRep3 [ChIP-seq]
Relations
BioProject PRJNA804201

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
GSE196295_RAW.tar 7.4 Gb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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