Microarray analysis of r-gene-mediated resistance to viruses

Takeaki Ishihara, Yukiyo Sato, Hideki Takahashi

Research output: Contribution to journalArticle

1 Citation (Scopus)

Abstract

The complex process for host-plant resistance to viruses is precisely regulated by a number of genes and signaling compounds. Thus, global gene expression analysis can provide a powerful tool to grasp the complex molecular network for resistance to viruses. The procedures for comparative global gene expression profi ling of virus-resistant and control plants by microarray analysis include RNA extraction, cDNA synthesis, cRNA labeling, hybridization, array scanning, and data mining steps. There are several platforms for the microarray analysis. Commercial services for the steps from cDNA synthesis to array scanning are now widely available; however, the data manipulation step is highly dependent on the experimental design and research focus. The protocols presented here are optimized for analyzing global gene expression during the R gene-conferred defense response using commercial oligonucleotide-based arrays. We also demonstrate a technique to screen for differentially expressed genes using Excel software and a simple Internet tool-based data mining approach for characterizing the identifi ed genes.

Original languageEnglish
Pages (from-to)197-218
Number of pages22
JournalMethods in Molecular Biology
Volume1236
DOIs
Publication statusPublished - Jan 1 2015
Externally publishedYes

Fingerprint

Microarray Analysis
Data Mining
Viruses
Gene Expression
Complementary DNA
Genes
vpr Genes
Complementary RNA
Oligonucleotide Array Sequence Analysis
Internet
Research Design
Software
RNA
Research

Keywords

  • Arabidopsis thaliana
  • Cucumber mosaic virus
  • Gene ontology
  • Microarray
  • R gene
  • Transcriptome

ASJC Scopus subject areas

  • Molecular Biology
  • Genetics

Cite this

Microarray analysis of r-gene-mediated resistance to viruses. / Ishihara, Takeaki; Sato, Yukiyo; Takahashi, Hideki.

In: Methods in Molecular Biology, Vol. 1236, 01.01.2015, p. 197-218.

Research output: Contribution to journalArticle

Ishihara, Takeaki ; Sato, Yukiyo ; Takahashi, Hideki. / Microarray analysis of r-gene-mediated resistance to viruses. In: Methods in Molecular Biology. 2015 ; Vol. 1236. pp. 197-218.
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