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| Status |
Public on May 09, 2020 |
| Title |
Transcriptomic expression patterns of two contrasting lowland rice varieties reveal high iron stress tolerance |
| Organism |
Oryza sativa |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Iron (Fe) toxicity is a major challenge for plant cultivation in acidic water-logged soil environments, where lowland rice is a major staple food crop. Only few studies addressed the molecular characterization of excess Fe tolerance in rice, and these highlight different mechanisms for Fe tolerance in the studied varieties. Here, we screened 16 lowland rice varieties for excess Fe stress growth responses to identify contrasting lines, Fe-tolerant Lachit and -susceptible Hacha. Hacha and Lachit differed in their physiological and morphological responses to excess Fe, including leaf growth, leaf rolling, reactive oxygen species generation, Fe and metal contents. These responses were mirrored by differential gene expression patterns, obtained through RNA-sequencing, and corresponding GO term enrichment in tolerant versus susceptible lines. From the comparative transcriptomic profiles between Lachit and Hacha in response to excess Fe stress, individual genes of the category metal homeostasis, mainly root-expressed, may contribute to the tolerance of Lachit. 22 out of these 35 metal homeostasis genes are present in selection sweep genomic regions, in breeding signatures and/or differentiated during rice domestication. These findings will serve to design targeted Fe tolerance breeding of rice crops.
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| Overall design |
9-day old rice plants of two contrasting rice accessions, Hacha and Lachit, were treated with normal (control) or excess iron concentrations (excess Fe) for 2 days. mRNA profiles were generated in triplicate.
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| Contributor(s) |
Bauer P, Mai H |
| Citation(s) |
33561287 |
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| Submission date |
May 08, 2020 |
| Last update date |
Oct 06, 2021 |
| Contact name |
Hans-Joerg Mai |
| E-mail(s) |
[email protected]
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| Organization name |
Heinrich Heine University
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| Department |
Institute of Botany
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| Lab |
Prof. Dr. Petra Bauer
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| Street address |
Universitaetsstrasse 1
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| City |
Dusseldorf |
| ZIP/Postal code |
40225 |
| Country |
Germany |
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| Platforms (1) |
| GPL13160 |
Illumina HiSeq 2000 (Oryza sativa) |
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| Samples (23)
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| Relations |
| BioProject |
PRJNA631179 |
| SRA |
SRP260662 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE150103_RAW.tar |
13.5 Mb |
(http)(custom) |
TAR (of TSV) |
| GSE150103_matrix_table_TPM.xlsx |
5.5 Mb |
(ftp)(http) |
XLSX |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
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