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ARS Home » Midwest Area » Columbus, Ohio » Soil Drainage Research » Research » Publications at this Location » Publication #163809
Title: INTEGRATED GENOMIC AND METABOLIC ANALYSES OF HYPOXIC STRESS RESPONSE IN FLOODING-TOLERANT SAG12:IPT ARABIDOPSIS

Author
item LIU, FENGLONG - THE INST FOR GENOMIC RES.
item Vantoai, Tara
item KLAPA, MARIA - THE UNIV OF MARYLAND
item MOY, LINDA - THE INST FOR GENOMIC RES.
item BOCK, GEOFFREY - THE INST FOR GEONOMIC RES
item KANANI, HARIN - THE UNIV OF MARYLAND
item LINFORD, LARA - THE INST FOR GENOMIC RES.
item QUACKENBUSH, JOHN - THE INST FOR GENOMIC RES.

Submitted to: Cold Spring Harbor Meeting
Publication Type: Abstract Only
Publication Acceptance Date: 3/10/2004
Publication Date: 5/12/2004
Citation: Liu, F., Vantoai, T.T., Klapa, M., Moy, L., Bock, G., Kanani, H., Linford, L., Quackenbush, J. 2004. Integrated genomic and metabolic analyses of hypoxic stress response in flooding-tolerant sag12:ipt arabidopsis [abstract]. Cold Spring Harbor Meeting. p. 168.

Interpretive Summary:

Technical Abstract: Plants have evolved adaptation mechanisms to sense oxygen limitation in their environment and make coordinated physiological and structural adjustments to enhance their hypoxic tolerance. To gain a comprehensive insight into how plants respond to conditions of low oxygen, we examined both gene transcript and cellular metabolite levels at 9 time points over 24 hours, in wild-type and flooding-tolerant transgenic Arabidopsis plants with autoregulated cytokinin synthesis under either normaxic or hypoxic conditions. Gene expression data were collected using whole-genome DNA amplicon microarrays representing over 27,000 predicted nuclear, chloroplastic, and mitochondrial genes while profiles of hundreds of metabolites were obtained using GC-MS. Analysis of expression data revealed statistically significant temporal patterns of gene expression. Genes involved in glycolysis and fermentation pathways (SS, PDCs, ADH1, LDH1), ethylene synthesis and perception (ACC oxidase, ETR2), and nitrogen utilization (ANR1, NR1, ASP2) were significantly up-regulated under conditions of low oxygen. Members of copper/zinc SODs and xyloglucan endotransglycosylase family are among down-regulated genes in response to hypoxic stress. Promoter analysis revealed an overrepresentation of AtMYB2 transcription factor binding motif (GT-motif) and novel putative cis-elements present in the promoter regions of the 12h- and 24h-upregulated gene sets. Association analysis is providing insight into the functions of those genes that were not previously known to be involved in hypoxic response and those genes of unknown function. Correlation of gene expression and metabolite profile data will potentially enable inferences into enzyme activities and dynamic metabolite fluxes along hypoxia-perturbed pathways.