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United States Department of Agriculture

Agricultural Research Service

Title: Using The Affymetrix Wheat Microarray As An Oat Expression Platform)

item Buescher, Elizabeth
item Anderson, Joseph

Submitted to: Plant and Animal Genome Conference
Publication Type: Abstract Only
Publication Acceptance Date: 12/1/2006
Publication Date: 1/13/2007
Citation: Buescher, E., Anderson, J.M. 2007. Using The Affymetrix Wheat Microarray As An Oat Expression Platform. Plant and Animal Genome Conference.

Interpretive Summary:

Technical Abstract: Recent advances in sequencing have resulted in the sequence of a large number of plant expressed sequence tags (ESTs) to entire plant genomes. Using these EST sequences, oligonucleotide microarray chips have been developed for several species including barley (Hordeum vulgare), maize (Zea mays), rice (Oryza sativa) and wheat (Triticum aestivum). However, little sequencing has been conducted on oat (Avena sativa) so an oat microarray has not been developed nor will it be in the near future. Microarrays, which allow the study of changes in gene expression over different treatments, have become a powerful tool for large scale gene analysis. Due to the high degree of synteny and gene conservation within the grass species it maybe possible to use the wheat Affymetrix oligonucleotide Genechip to examine gene expression in cultivated oat, Avena sativa. In this study this microarray was used to examine expression changes in the oat cultivar Clintland 64 which is susceptible to barley yellow dwarf virus (BYDV)-PAV after virus infection. Two different treatments of untreated control plants and BYDV-PAV viruliferous aphid-infested plants were collected at several different time points after infestation. RNA from the two treatments was hybridized to wheat Affymetrix arrays. Approximately 6000 perfect match (PM) probesets were detected following hybridization with control and viruliferous infested plant RNA which suggests that this array will be a useful tool for examining the oat transcriptome.

Last Modified: 05/27/2017
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