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| Status |
Public on Dec 30, 2021 |
| Title |
Full-length transcriptome of Glycyrrhiza uralensis Fisch. in under four treatment |
| Organism |
Glycyrrhiza uralensis |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
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.
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| Overall design |
Full-length transcriptome analysis of Glycyrrhiza uralensis Fisch. seedling under control or salt treatment with or without Bacillus cereus G2.
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| Contributor(s) |
Zhang X, Xiao X, Wang Q, Ma X, Lang D, Guo Z |
| Citation(s) |
35058941 |
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| Submission date |
Nov 02, 2021 |
| Last update date |
Jan 31, 2022 |
| Contact name |
Xiang Xiao |
| E-mail(s) |
xiaoxiang9707@126.com
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| Organization name |
Ningxia Medical University
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| Street address |
Shengli Street
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| City |
Yinchuan |
| State/province |
Ningxia |
| ZIP/Postal code |
750000 |
| Country |
China |
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| Platforms (1) |
| GPL30922 |
Illumina NovaSeq 6000 (Glycyrrhiza uralensis) |
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| Samples (12)
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| Relations |
| BioProject |
PRJNA777252 |
| SRA |
SRP344227 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE187003_All_gene_expression.list.txt.gz |
1.2 Mb |
(ftp)(http) |
TXT |
| GSE187003_All_iso_expression.list.txt.gz |
2.0 Mb |
(ftp)(http) |
TXT |
| GSE187003_Glycyrrhiza_uralensis.GDB.genome.fa.gz |
98.7 Mb |
(ftp)(http) |
FA |
| GSE187003_Glycyrrhiza_uralensis.GDB.gff3.gz |
5.0 Mb |
(ftp)(http) |
GFF3 |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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