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SRX3598183: GSM2947245: nia1/2 isoxaben_rep2; Arabidopsis thaliana; RNA-Seq
1 ILLUMINA (NextSeq 500) run: 16M spots, 1.2G bases, 490.6Mb downloads

Submitted by: NCBI (GEO)
Study: Transcriptome analysis of isoxaben-induced loss of cell wall integrity in Arabidopsis nia1/2 mutant
show Abstracthide Abstract
Plant cell walls maintain their functional integrity during growth, defense and turgor generation through a dedicated cell wall integrity (CWI) maintenance mechanism. Upon detection of integrity impairment due to cell wall damage (CWD) compensatory responses are activated to maintain CWI. Responses include production of salicylic acid (SA), jasmonic acid (JA) and lignin as well as growth inhibition. Here we investigated the processes responsible for inducing growth inhibition upon CWD in Arabidopsis thaliana seedlings. Genetic studies implicated NITRATE REDUCTASE1 2 (NIA1 2) in the response to CWD. RNAseq-based transcriptomics showed that nearly all the CWD-induced transcript changes detectable in Col-0 were absent in nia1 2 seedlings. Overall design: Both genotypes (Col-0 and nia1/2) were treated with either isoxaben or DMSO (mock). Three replicates of Col-0 samples and two replicates of nia1/2 samples were analyzed.
Sample: nia1/2 isoxaben_rep2
SAMN08391650 • SRS2863738 • All experiments • All runs
Library:
Instrument: NextSeq 500
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: SINGLE
Construction protocol: Total RNA was extracted using a Spectrum Plant Total RNA Kit (Sigma-Aldrich). RNA concentration was measured using a Qubit RNA HS Assay Kit (Thermo Fisher Scientific) and integrity assessed using a Agilent RNA 6000 Pico Kit. RNA Seq libraries were prepared using a TruSeq Stranded mRNA Kit (Illumina) according to the manufacturer's instructions. 500 ng total RNA was used as starting material.
Experiment attributes:
GEO Accession: GSM2947245
Links:
Runs: 1 run, 16M spots, 1.2G bases, 490.6Mb
Run# of Spots# of BasesSizePublished
SRR650988715,960,1951.2G490.6Mb2018-01-29

ID:
4983685

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