NASCArrays Information at The BAR

Welcome to NASCArrays information at the BAR. This page hosts meta-information from the NASCArrays service (2002-2013). This information was parsed from text files available on the NASCArrays site. NASCArrays data is on iPlant server. To download experiment data from iPlant, please click on the experiment number. To download the CEL files, please click on the ftp link.

Title:Genes co-regulated by the NMD factors UPF2 and SMG5
Description:Eukaryotic cells have evolved a mechanism called nonsense mediated mRNA decay (NMD) that detects and degrades aberrant mRNAs that contain premature termination codons (PTCs). NMD has recently acquired broader importance as it has been found to regulate not only aberrant mRNAs but also a great diversity of transcripts, including wild type genes in mammals, Drosophila and yeast. Seven proteins are the core of the NMD complex: SMG1, SMG2 (UPF1), SMG3 (UPF2), SMG4 (UPF3), SMG5, SMG6 and SMG7. Plants have orthologues of most of these proteins. We have identified and characterized a number of alleles of UPF1, UPF3 and SMG5 and made 35S:UPF2 RNAi (upf2i) transgenic plants, all of which share some phenotypic characteristics. Transcriptome analysis of upf1 and upf3 mutants has identified a subset of genes coregulated by UPF1 and UPF3 and, therefore, by NMD (unpublished data). By doing further transcriptome analysis on smg5 mutants and upf2i plants we aim to build a more robust subset of NMD targets in Arabidopsis. RNA will be extracted from 17 day-old mutant, transgenic and wild type seedlings grown at 22-24 C under constant light.
ftp Link:ftp Link

Slide Information:
Slide IDSlide NameGenetic BackgroundTissueStock CodeCel File
Arciga-Reyes_2-1_wildtype-1_Rep1_ATH120928whole plant Arciga-Reyes_2-1_wildtype-1_Rep1_ATH1.CEL
Arciga-Reyes_2-2_wildtype-2_Rep2_ATH120929whole plant Arciga-Reyes_2-2_wildtype-2_Rep2_ATH1.CEL
Arciga-Reyes_2-3_upf2i-1_Rep1_ATH120930Col-0whole plant Arciga-Reyes_2-3_upf2i-1_Rep1_ATH1.CEL
Arciga-Reyes_2-4_upf2i-2_Rep2_ATH120931Col-0whole plant Arciga-Reyes_2-4_upf2i-2_Rep2_ATH1.CEL
Arciga-Reyes_2-5_smg5-2-1_Rep1_ATH120932whole plant N573354Arciga-Reyes_2-5_smg5-2-1_Rep1_ATH1.CEL
Arciga-Reyes_2-6_smg5-2-2_Rep2_ATH120933whole plant N573354Arciga-Reyes_2-6_smg5-2-2_Rep2_ATH1.CEL