Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Analysis of whole transcriptome RNA-seq data reveals the involvement of alternative splicing in the drought response of Glycyrrhiza uralensis

ABSTRACT: Analysis of whole transcriptome RNA-seq data reveals the involvement of alternative splicing in the drought response of Glycyrrhiza uralensis

PROVIDER: PRJNA810509 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR18147900_1.fastq.gz	Fastqsanger.gz
	SRR18147900_2.fastq.gz	Fastqsanger.gz
	SRR18147901_1.fastq.gz	Fastqsanger.gz
	SRR18147901_2.fastq.gz	Fastqsanger.gz
	SRR18147902_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 60

Similar Datasets

Analysis of whole transcriptome RNA-seq data reveals the involvement of alternative splicing in the drought response of Glycyrrhiza uralensis

Project description:we performed a genome-wide analysis of AS events in G. uralensis at different time points under drought stress using a high-throughput RNA sequencing approach. We detected 2479 and 2764 AS events in the aerial part (AP) and underground part (UP), respectively, of drought-stressed G. uralensis. Of these, last exon variable shear and exon skipping were the main types of AS. Overall, 2653 genes undergoing significant AS regulation were identified from the AP and UP of G. uralensis exposed to drought for 2, 6, 12, and 24 h. Gene Ontology analyses indicated that AS plays an important role in the regulation of nitrogen and protein metabolism in the drought response of G. uralensis. Notably, the spliceosomal pathway and basal transcription factor pathway were significantly enriched with differentially spliced genes (DSGs) under drought stress. Genes related to splicing regulators in the AP and UP of G. uralensis responded to drought stress and themselves underwent AS under drought conditions. In summary, our data suggest that drought-responsive AS directly and indirectly regulates the drought response of G. uralensis. Further in-depth studies on the functions and mechanisms of AS during abiotic stresses will provide new strategies for improving plant stress resistance.

2022-04-20 | GSE197490 | GEO

Full-length transcriptome of Glycyrrhiza uralensis Fisch. in under five treatment

Project description:Purpose: The goal of this study are to reveal the internal mechanism of Bacillus pumilus G5 and silicon increased Glycyrrhiza uralensis Fisch. seedlings drought-tolerance by RNA-Seq. Methods: mRNA profiles of Glycyrrhiza uralensis Fisch. Seedling in five treatment: control treatment, drought stress treatment, drought stress with G5 treatment, drought stress with Si treatment and drought stress with G5 combined Si treatment. Results: The full-length transcriptome sequencing of 15 samples was completed, and the clean data of each sample was 6.28GB. All the consistent transcript sequences were aligned to the reference genome by minimap2 software and then de-redundant analysis was performed. Finally, 37267 genes were obtained. A total of 6934 DEGs were identified in four comparisons (D vs CK, DB vs D, DSi vs D, and DBSi vs D), among which are 967, 1559, 1278 and 3130 DEGs in four comparisons, respectively. Conclusions: Our study help to better understand the underlying molecular mechanisms of Bacillus pumilus G5 and silicon improve the drought-tolerance of G. uralensis.

2022-09-30 | GSE214347 | GEO

Full-length transcriptome of Glycyrrhiza uralensis Fisch. in under eight treatment

Project description:Purpose: The goal of this study are to reveal the internal mechanism of silicon increased Glycyrrhiza uralensis Fisch. seedlings drought-tolerance,salt-tolerance and salt-drought tolerance by RNA-Seq. Methods: mRNA profiles of Glycyrrhiza uralensis Fisch. Seedling in eight treatment: control treatment with or without silicon,salt treatment with or without silicon,drought treatment with or without silicon,salt-drought treatment with or without silicon. Each treatment group sequenced the aerial (stems, leaves, buds and all the above ground parts) and underground parts (roots and all the underground parts) respectively Results:A total of 48 samples were sequenced and 372.37GB of clean data was acquired. The clean data of every sample reached 5.96GB, and the percentage of Q30 base was 94.63% or above. Clean reads of each sample were sequentially aligned with the specified reference genome, and alignment efficiency ranged from 85.27% to 92.66%. Therefore, the transcriptome data of samples were obtained with a high correct rate and good genomic coverage.Results of sequencing analysis showed that compared with CK group, there were 1426 DEGs (771 up-regulated and 655 down-regulated), 1386 DEGs (571 up-regulated and 815 down-regulated) and 4192 DEGs (1668 up-regulated and 2524 down-regulated) in aerial part, and 1462 DEGs (730 up-regulated and 732 down-regulated), 2212 DEGs (939 up-regulated and 1273 down-regulated) and 3735 DEGs (1768 up-regulated and 1986 down-regulated) in underground part of D, S and SD group respectively. Conclusions: Our study help to better understand the underlying molecular mechanisms of silicon improve the drought-tolerance,salt-tolerance and salt-drought tolerance of G. uralensis.

2022-02-21 | GSE197004 | GEO

Glycyrrhiza uralensis

Project description:Glycyrrhiza uralensis

| PRJNA40747 | ENA

Glycyrrhiza uralensis

Project description:Glycyrrhiza uralensis Transcriptome

| PRJNA274181 | ENA

Glycyrrhiza uralensis

Project description:Glycyrrhiza uralensis overview

| PRJNA43397 | ENA

Glycyrrhiza uralensis

Project description:Glycyrrhiza uralensis transcriptome

| PRJDB11799 | ENA

Full-length transcriptome of Glycyrrhiza uralensis Fisch. in under four treatment

Project description:Purpose: The goal of this study are to reveal the internal mechanism of Bacillus cereus G2 increased Glycyrrhiza uralensis Fisch. seedlings salt-tolerance by RNA-Seq. Methods: mRNA profiles of Glycyrrhiza uralensis Fisch. Seedling in four treatment: control treatment, G2 treatment, salt treatment, salt and G2 treatment. Results: We mapped about 3 million sequence reads per sample to the G. uralensis transcriptome. A total of 35,831 genes in all samples of G. uralensis were identified and quantified by transcriptions, among which 3608 DEGs were identified. There are 1589, 623, 469 and 927 DEGs in S vs CK, CK+B vs CK, S+B vs S and S+B vs CK+B comparisons, respectively. Validation of expression levels for 12 randomly selected DEG candidates was carried out by quantitative real-time PCR (qRT-PCR). The results showed high congruence between RNA-Seq and qRT-PCR results (coefficient of determination R2 =0.9088) indicating the reliability of RNA-Seq quantification of gene expression. Conclusions: Our study help to better understand the underlying molecular mechanisms of G2 improve the salt tolerance of G. uralensis.

2021-12-30 | GSE187003 | GEO

Glycyrrhiza uralensis strain:B-11 strain | isolate:Glycyrrhiza uralensis Fisch | breed:Glycyrrhiza uralensis Fisch | cultivar:Glycyrrhiza uralensis Fisch

Project description:Glycyrrhiza uralensis strain:B-11 strain | isolate:Glycyrrhiza uralensis Fisch | breed:Glycyrrhiza uralensis Fisch | cultivar:Glycyrrhiza uralensis Fisch Raw sequence reads

| PRJNA553667 | ENA

Glycyrrhiza uralensis

Project description:Glycyrrhiza uralensis Raw sequence reads

| PRJNA705545 | ENA