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| Status |
Public on Apr 25, 2019 |
| Title |
Transcriptome analysis reveals cotton (Gossypium hirsutum) genes that are differentially expressed in cadmium stress tolerance |
| Organism |
Gossypium hirsutum |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
For environmental safety, the high concentration of heavy metals in the soil should be removed. Cadmium (Cd), one of the heavy metals polluting the soil while its concentration exceeds 3.4 mg/kg in soil. Potential use of cotton for remediating heavy Cd-polluted soils is available while its molecular mechanisms of Cd tolerance remains unclear in cotton. In this study, transcriptome analysis was used to identify the Cd tolerance genes and their potential mechanism in cotton. Finally 4,627 differentially expressed genes (DEGs) in the root, 3,022 DEGs in the stem and 3,854 DEGs in leaves were identified through RNA-Seq analysis, respectively. These genes contained heavy metal transporter genes (ABC, CDF, HMA, etc.), annexin genes, heat shock genes (HSP) amongst others. Gene ontology (GO) analysis showed that the DEGs were mainly involved in the oxidation-reduction process and metal ion binding. The DEGs mainly enriched in two pathways, the influenza A and the pyruvate pathway. GhHMAD5 protein, containing a heavy-metal domain, was identified in the pathway to transport or to detoxify the heavy ion. GhHMAD5-overexpressed plants of Arabidopsis thaliana showed the longer roots compared with the control. Meanwhile, GhHMAD5-silenced cotton plants showed more sensitive to Cd stress compared with the control. The results indicated that GhHMAD5 gene is remarkably involved in Cd tolerance, which gives us a preliminary understanding of Cd tolerance mechanisms in upland cotton. Overall, this study provides valuable information for the use of cotton to remediate the soil polluted with heavy metals.
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| Overall design |
leaf, stem and whole root of three leaf-heart cotton seedlings were collected for 9h under 4 mM CdCl2 solution.
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| Contributor(s) |
Han M, Ye W |
| Citation(s) |
30909634 |
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| Submission date |
Feb 17, 2019 |
| Last update date |
Oct 27, 2021 |
| Contact name |
Mingge Han |
| E-mail(s) |
13707663917@163.com
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| Phone |
13707663917
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| Organization name |
Institute of cotton research of CAAS,China
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| Street address |
38 Huanghe Avenue
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| City |
Anyang |
| ZIP/Postal code |
455000 |
| Country |
China |
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| Platforms (1) |
| GPL23158 |
Illumina HiSeq 4000 (Gossypium hirsutum) |
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| Samples (18)
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| Relations |
| BioProject |
PRJNA522910 |
| SRA |
SRP186123 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE126671_genes_fpkm_expression.xlsx |
19.5 Mb |
(ftp)(http) |
XLSX |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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