| Abstract Detail
Seed Biology Yuan, Joshua S. [1], Gealy, David R. [2], Stewart, Nathan R. [3], Campbell, Matthew A. [4], Stewart Jr., C. Neal [5]. Comparative Functional Genomics Study of Genes Involved in Low Temperature Germinability. Understanding the molecular mechanisms underlying the low temperature germinability is important in expanding the niche of cereal crops. US red rice accessions provide an excellent source of new alleles for improving cultivated rice yield, quality, stress tolerance, and disease resistance. Here we present comparative functional genomics data identifying gene candidates involved in low temperature germinability that may be useful in crop improvement. US red rice accessions exhibit a diverse range of phenotypes in low temperature germinability and postgermination cold tolerance. Two red rice accessions were selected for further genomics studies because of their extreme phenotypes in low temperature germinability. US red rice accession 16B was chosen as a cold resistant line and accession 18A was chosen as a cold sensitive line. Microarray experiments were carried out to compare the gene expression pattern of 16B, 18A and the Nipponbare control after cold treatment during germination. Our data indicates the distinct gene regulatory mechanisms among three varieties upon cold treatment. Generally speaking, cold resistant varieties like 16B respond to low temperature more actively with more regulatory genes up-regulated as compared to cold sensitive lines such as18A. Low temperature response genes including AP2 domain protein and DREB proteins are up-regulated specifically in 16B and Nipponbare, the cold resistant varieties. Real-time PCR was carried out to verify the gene expression patterns for those relevant to cold resistance. Several knockout mutants for low temperature induced genes exhibited reduced low temperature germinability at 13oC. Molecular functions of these genes are further studied. Further gene expression analysis reveals that one gene is a previously unknown transcriptional factor involved general low temperature response during germination. The knockout of the gene results in abolished seed germination upon low temperature treatment and altered expression of genes involved in cold response. Overall, our research indicates comparative functional genomics approach as an effective way to identify genes involved in low temperature germinability.
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1 - The University of Tennessee, Knoxville, The UTIA Genomics Hub, 2431 Joe Johnson Drive, RM 252, Knoxville, TN, 37919, USA
2 - Dale Bumpers National Rice Research Center, USDA-ARS, 2890 Hwy 130 Eas
3 - The University of Tennessee, Knoxville, The UTIA Genomics Hub
4 - The Institute for Genomic Research, 9712 Medical Center Dr, Rockville,
5 - The University of Tennessee, Knoxville, Department of Plant Sciences
Keywords:
comparative functional genomics
low temperature germinability
seed germination
transcription factor
microarray.
Presentation Type: Plant Biology Abstract
Session: P
Location: Exhibit Hall (Northeast, Southwest & Southeast)/Hilton
Date: Sunday, July 8th, 2007
Time: 8:00 AM
Number: P29002
Abstract ID:219 |
