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| Status |
Public on Dec 31, 2013 |
| Title |
Spatial transcriptomes of iron-deficient and cadmium-stressed rice |
| Organism |
Oryza sativa |
| Experiment type |
Expression profiling by array
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| Summary |
Several metals are essential nutrients for plants but metals are toxic in excess, deleteriously affecting crop yield and quality. Various kinds of genes involved in metal homeostasis have been investigated in detail over the past few decades and the mechanisms of how metals are absorbed from soil and distributed in plants have been elucidated. However, numerous genes related to metal homeostasis remain to be investigated and a comprehensive analysis of the expressions of these genes is required. In the present study, we investigated the spatial gene expression profile of iron (Fe)-deficient and cadmium (Cd)-stressed rice by a combination of laser capture microdissection and microarray analysis.
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| Overall design |
We performed comprehensive microarray analysis of a rice root using laser microdissection and collected a total of 13 samples (3 replicates for each sample, 39 total microarray data). Roots of normal, Fe-deficient (-Fe) and Cd-stressed (+Cd) rice were separated into the vascular bundle (VB), cortex (Cor), and epidermis plus exodermis (EP). In addition, vascular bundles from new leaves (newDC) and old leaves (oldDC) at the lowest node, which are important for metal distribution, were separately analyzed.
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| Contributor(s) |
Ogo Y, Kakei Y, Itai RN, Kobayashi T, Nakanishi H, Takahashi H, Nakazono M, Nishizawa NK |
| Citation(s) |
24188410 |
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| Submission date |
Aug 31, 2012 |
| Last update date |
Apr 02, 2014 |
| Contact name |
Yuko Ogo |
| E-mail(s) |
[email protected]
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| Phone |
+81 29 838 8681
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| Organization name |
NARO
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| Street address |
3-1-3 Kannondai
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| City |
Tsukubashi |
| State/province |
Ibaraki |
| ZIP/Postal code |
305-0035 |
| Country |
Japan |
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| Platforms (1) |
| GPL6864 |
Agilent-015241 Rice Gene Expression 4x44K Microarray (Feature Number version) |
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| Samples (39)
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| Relations |
| BioProject |
PRJNA174253 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE40549_RAW.tar |
298.1 Mb |
(http)(custom) |
TAR (of TXT) |
| Processed data included within Sample table |
| Processed data provided as supplementary file |
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