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Microarray analyses during early and later stages of the Arabidopsis/Piriformospora indica interaction.

Vahabi K, Sherameti I, Bakshi M, Mrozinska A, Ludwig A, Oelmüller R - Genom Data (2015)

Bottom Line: An increase of the biomass and seed yield is other beneficial effect of P. indica for the host plants.We describe a co-cultivation system which allows us to investigate the effects of fungal exudates on the root transcriptome before and after the establishment of a physical contact, and during early phases of root colonization.We present a detailed protocol which facilitates easy reproduction of the results (NCBI GEO accession number GSE58771) published by Vahabi et al. (2015) in BMC Plant Biology [1].

View Article: PubMed Central - PubMed

Affiliation: Institute of General Botany and Plant Physiology, Friedrich-Schiller-University Jena, Dornburger Str. 159, 07743 Jena, Germany.

ABSTRACT
Colonization of the roots of different plant species by Piriformospora indica results in better plant performance and biotic and abiotic stress tolerance. An increase of the biomass and seed yield is other beneficial effect of P. indica for the host plants. The interaction of P. indica with Arabidopsis thaliana roots is a unique model system to study symbiotic relationships. We describe a co-cultivation system which allows us to investigate the effects of fungal exudates on the root transcriptome before and after the establishment of a physical contact, and during early phases of root colonization. We present a detailed protocol which facilitates easy reproduction of the results (NCBI GEO accession number GSE58771) published by Vahabi et al. (2015) in BMC Plant Biology [1].

No MeSH data available.


Experiment design and steps in schematic view.
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f0015: Experiment design and steps in schematic view.

Mentions: RNA was extracted from root samples of 3 biological independent experiments, and hybridized to the Arabidopsis Genome Array ATH1 (Affymetrix, USA) at the Kompetenzzentrum für Fluoreszente Bioanalytik, Regensburg, Germany. Hybridization was performed by mixing equal amounts of RNA from the 3 biological samples. ROBIN (http://mapman.gabipd.org/web/ guest/robin-download) and MapMan [5] programs were used for analysis of hybridization signal data followed by statistical analysis with the t-test (Fig. 3). The raw and normalized data have been submitted to GEO (http://www.ncbi.nlm.nih.gov/geo, submission number GSE58771) [1].


Microarray analyses during early and later stages of the Arabidopsis/Piriformospora indica interaction.

Vahabi K, Sherameti I, Bakshi M, Mrozinska A, Ludwig A, Oelmüller R - Genom Data (2015)

Experiment design and steps in schematic view.
© Copyright Policy - CC BY-NC-ND
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4664658&req=5

f0015: Experiment design and steps in schematic view.
Mentions: RNA was extracted from root samples of 3 biological independent experiments, and hybridized to the Arabidopsis Genome Array ATH1 (Affymetrix, USA) at the Kompetenzzentrum für Fluoreszente Bioanalytik, Regensburg, Germany. Hybridization was performed by mixing equal amounts of RNA from the 3 biological samples. ROBIN (http://mapman.gabipd.org/web/ guest/robin-download) and MapMan [5] programs were used for analysis of hybridization signal data followed by statistical analysis with the t-test (Fig. 3). The raw and normalized data have been submitted to GEO (http://www.ncbi.nlm.nih.gov/geo, submission number GSE58771) [1].

Bottom Line: An increase of the biomass and seed yield is other beneficial effect of P. indica for the host plants.We describe a co-cultivation system which allows us to investigate the effects of fungal exudates on the root transcriptome before and after the establishment of a physical contact, and during early phases of root colonization.We present a detailed protocol which facilitates easy reproduction of the results (NCBI GEO accession number GSE58771) published by Vahabi et al. (2015) in BMC Plant Biology [1].

View Article: PubMed Central - PubMed

Affiliation: Institute of General Botany and Plant Physiology, Friedrich-Schiller-University Jena, Dornburger Str. 159, 07743 Jena, Germany.

ABSTRACT
Colonization of the roots of different plant species by Piriformospora indica results in better plant performance and biotic and abiotic stress tolerance. An increase of the biomass and seed yield is other beneficial effect of P. indica for the host plants. The interaction of P. indica with Arabidopsis thaliana roots is a unique model system to study symbiotic relationships. We describe a co-cultivation system which allows us to investigate the effects of fungal exudates on the root transcriptome before and after the establishment of a physical contact, and during early phases of root colonization. We present a detailed protocol which facilitates easy reproduction of the results (NCBI GEO accession number GSE58771) published by Vahabi et al. (2015) in BMC Plant Biology [1].

No MeSH data available.