GSM4047775: HS-1-b [T17]; Ziziphus jujuba; RNA-Seq - SRA

SRX6760587: GSM4047775: HS-1-b [T17]; Ziziphus jujuba; RNA-Seq
1 ILLUMINA (HiSeq X Ten) run: 32.8M spots, 9.8G bases, 3.5Gb downloads

Submitted by: NCBI (GEO)

Study: Comparative transcriptome analysis reveals differential transcription in heat-resistant and heat-sensitive jujube cultivars under heat stress

PRJNA562437 • SRP219338 • All experiments • All runs

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Jujube (Ziziphus jujuba Mill.) is an economically and agriculturally significant fruit crop and is widely cultivated throughout the world. Heat stress has recently become one of the major abiotic stresses limiting plant growth and productivity. However, there are few studies on the transcriptome profiling of jujube subjected to heat stress. In this study, we analyzed the physiological and transcriptomic changes of heat-resistant jujube cultivar 'HR' and heat-sensitive cultivar 'HS' caused by high temperature stress. We statistically determined 984, 1468, 1727 and 2098 differentially expressed genes (DEGs) between 'HR' and 'HS' after 0, 1, 3, 5 d of heat stress, respectively. Gene Ontology (GO) enrichment analysis indicated that Aa great deal of heat-responsive genes were identified in these DEGs by Gene Ontology (GO) enrichment analysis. It suggests the distinct molecular mechanism of jujube response to heat stress. Furthermore, we validated the expression profiles of 12 candidates using qRT-PCR to further confirm the accuracy of the RNA-seq data. These results will advance our knowledge of the genes involved in the complex regulatory networks of heat stress and provide genetic resources for further improving the heat tolerance in jujube. Overall design: Transcriptome analysis for a jujuebe heat-sensitive cultivar under heat stress,in triplicate, using Illumina HiSeq X-ten.

Sample: HS-1-b [T17]

SAMN12640784 • SRS5309278 • All experiments • All runs

Organism: Ziziphus jujuba

Library:

Instrument: HiSeq X Ten

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: cDNA

Layout: PAIRED

Construction protocol: Total RNA was extracted using a Plant RNA EASYspin Plus Kit (aidlab, Peking, China) according to the instructions of the manufacturer, and treated with RQ1 DNase (Promega) to remove DNA. The quality and quantity of the purified RNA were determined by measuring the absorbance at 260 nm and 280 nm (A260 and A280) using SmartSpec Plus (BioRad, USA). RNA integrity was further verified by electrophoresis using a 1.5% agrose gel. To avoid individual variation, we selected three biological replicates for each sample, and extracted total RNA separately, and then we pooled the replicates together for the following experiments. Construction of cDNA library was independently prepared using 10 ug of total RNA. Polyadenylated RNAs were purified and concentrated with oligo (dT)-conjugated magnetic beads (Invitrogen) before being used for the directional RNA-seq library preparation. Purified mRNAs were iron fragmented at 95oC followed by end repair and 5' adaptor ligation. Then reverse transcription was performed with RT primer harboring 3' adaptor sequence and randomized hexamer. The cDNAs were purified and amplified and PCR products corresponding to 200-500 bps were purified, quantified and stored at -80 oC until used for sequencing.

Experiment attributes:

GEO Accession: GSM4047775

Links:

NCBI link: NCBI Entrez (gds)

Runs: 1 run, 32.8M spots, 9.8G bases, 3.5Gb

Run	# of Spots	# of Bases	Size	Published
SRR10023549	32,752,424	9.8G	3.5Gb	2020-10-02

ID:: 8905025

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