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| Status |
Public on Feb 24, 2010 |
| Title |
Small RNAs in different tissues and phloem of oilseed rape under nutrient stress conditions |
| Platform organisms |
Physcomitrium patens; Pinus taeda; Populus trichocarpa; Arabidopsis thaliana; Brassica napus; Brassica rapa; Brassica oleracea; Glycine max; Medicago truncatula; Oryza sativa; Saccharum officinarum; Sorghum bicolor; Triticum aestivum; Zea mays; Vitis vinifera; Selaginella moellendorffii |
| Sample organism |
Brassica napus |
| Experiment type |
Non-coding RNA profiling by array
|
| Summary |
The objective of this study was to identify nutrient-responsive small RNAs in different tissues and in phloem sap of rape plants. miRNA microarrays containing all currently known plant miRNAs (Sanger miRBase versions 10.0, 10.1 and 11.0), and a set of unknown small RNAs cloned earlier from Brassica phloem sap (Bn_PsRNA) were used. The phloem, leaf and root response to nutrient deficiency were analyzed by removing either sulfate, copper or iron from the growth medium. The small RNA profile from phloem and inflorescence stems of plants grown under full nutrition conditions was also analyzed and compared.
The study demonstrates that the phloem sap sRNA profile is distinct from that of the inflorescence stems, leaves and roots. Furthermore, we could identify phloem-enriched small RNAs and showed that some of them specifically accumulate in the phloem in response to nutrient deprivation.
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| Overall design |
For the identification of nutrient-responsive small RNAs in Brassica napus, three tissues (leaf, root, phloem sap) were analyzed under different nutrient stresses (sulfur, iron or copper starvation) and were compared to the corresponding tissue from plants grown under full nutrition conditions. Nine dual-color arrays (provided by LC Sciences, MRA-1038) were performed. In addition, a microarray hybridization experiment comparing phloem sap to the surrounding inflorescence stem tissue was performed.
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| Contributor(s) |
Buhtz A, Pieritz J, Springer F, Kehr J |
| Citation(s) |
20388194 |
| Submission date |
Feb 10, 2010 |
| Last update date |
Mar 22, 2012 |
| Contact name |
Anja Buhtz |
| E-mail(s) |
anja.buhtz@upm.es
|
| Organization name |
Centro de Biotecnologia y Genomica de Plantas
|
| Lab |
280
|
| Street address |
Campus de Montegancedo, M40,km38
|
| City |
Madrid |
| ZIP/Postal code |
28223 |
| Country |
Spain |
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| Platforms (3) |
| GPL9736 |
Plants 4K miRNA LC_MRA-1038_miRNAPlants_10.0 + Bn_PsRNAs |
| GPL9737 |
Plants 4K miRNA LC_MRA-1038_miRNAPlants_10.1 + Bn_PsRNAs |
| GPL9738 |
Plants 4K miRNA LC_MRA-1038_miRNAPlants_11.0 + Bn_PsRNAs |
|
| Samples (10)
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| GSM507489 |
Brassica napus_phloem_S-starvation (2 weeks) vs. full nutrition |
| GSM507490 |
Brassica napus_leaf_S-starvation (2 weeks) vs. full nutrition |
| GSM507491 |
Brassica napus_root_S-starvation (2 weeks) vs. full nutrition |
| GSM507492 |
Brassica napus_phloem_Fe-starvation (3 weeks) vs. full nutrition |
| GSM507493 |
Brassica napus_leaf_Fe-starvation (3 weeks) vs. full nutrition |
| GSM507511 |
Brassica napus_root_Fe-starvation (3 weeks) vs. full nutrition |
| GSM507512 |
Brassica napus_inflorescence stem vs. phloem under full nutrition |
| GSM507517 |
Brassica napus_phloem_Cu-starvation (2 weeks) vs. full nutrition |
| GSM507528 |
Brassica napus_leaf_Cu-starvation (2 weeks) vs. full nutrition |
| GSM507529 |
Brassica napus_root_Cu-starvation (2 weeks) vs. full nutrition |
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| Relations |
| BioProject |
PRJNA124229 |
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