Geisler-Lee, Jane , Zhu, Mengxia .
Suberin Biosynthesis in Arabidopsis, a New Look.
Suberin is a hydrophobic polymer in different plant tissues, such as the phellem layer in periderm and the casparium strip in root endodermal cells. Suberin consists of two domains (i.e. monomers), aliphatic and aromatic. The aromatic domains are derived from tyrosine and phenylalanine in the shikimate pathway. The aliphatic domains are derived from either glycerol or fatty acid metabolites. In this study, we first curated known suberin biosynthetic genes and all cytochromes and peroxidases based on extensive literature search. We also included genes, which would be involved fatty acid catabolism based on homology or putative function. Cold or salt stress triggers suberin formation in root endodermis and thus it is our rationale to use time course microarray data from cold and salt stressed Arabiodopsis roots. Two mathematic approaches were used to investigate the expression data of the listed genes. A random matrix theory-based approach is exploited to analyze the cross correlations of expression data and a transcriptional network, conveying information on members of gene clusters and cluster interactions, is constructed. A second approach predicts and analyzes protein-protein interaction (PPi) of the tentative suberin biosynthetic genes by interlog comparison with other model organisms. Using both expression correlation and predicted PPi, we have extended and filled in metabolic and regulatory pathways for suberin biosynthesis. New candidate genes in both aliphatic and aromatic pathways have been added bioinformatically and will be targeted for mutagenesis and experimental analysis.
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1 - Southern Illinois University Carbondale, Plant Biology, Carbondale, Illinois, 62901, USA
2 - Southern Illinois University Carbondale, Computer Science
Plant secondary metabolism.
Presentation Type: Plant Biology Abstract
Location: Exhibit Hall (Northeast, Southwest & Southeast)/Hilton
Date: Sunday, July 8th, 2007
Time: 8:00 AM