Microarray analysis of gene expression of a Arabidopsis mutant xvp-d

ABSTRACT: Microarray analysis was performed to compare the transcriptomes of the wild type and the xvp-d mutant. Because the xvp-d homozygous plants are extremely dwarf, we used Col-0 and xyp-d/+ heterozygous line. For both genotypes, plants were grown for 5 weeks under long day conditions. Three biological replicates were used for microarray analysis. For each replicate, 3-6 primary inflorescence stems were used with cauline leaves and side branches removed. Total RNAs were isolated from the collected materials using a RNA isolation kit (Qiagen). The Affymetrix Gene Atlas System was used to perform the microarray analysis. GeneAtlas® WT Expression Kit was used for RNA treatment, cDNA synthesis, fragmentation and labeling, and hybridization following the manufacture’s manual. Background correction, quantile normalization, and gene expression analysis were performed using the Expression Console and Transcriptome Analysis Console from Affymetrix. Gene level differential expression filter was set at Fold Change (linear) < -2 or Fold Change (linear) > 2, and ANOVA p-value (Condition pair) < 0.05. The microarray experiment was solely used as a screen for candidate genes that changed significantly in the xvp-d mutant, and selected genes were then validated independently with real-time PCR experiments.

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Huanzhong Wang 

PROVIDER: E-MTAB-7705 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress