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Plant Physiol, December 2000, Vol. 124, pp. 1570-1581
Microarray Analysis of Developing Arabidopsis
Seeds1
Thomas
Girke,2
Jim
Todd,3
Sari
Ruuska,
Joe
White,4
Christoph
Benning, and
John
Ohlrogge*
Departments of Botany and Plant Pathology (T.G., J.T., S.R., J.O.)
and Biochemistry (J.W., C.B.), Michigan State University, East Lansing,
Michigan 48824
To provide a broad analysis of gene expression in developing
Arabidopsis seeds, microarrays have been produced that display approximately 2,600 seed-expressed genes. DNA for genes spotted on the
arrays were selected from >10,000 clones partially sequenced from a
cDNA library of developing seeds. Based on a series of controls,
sensitivity of the arrays was estimated at one to two copies of mRNA
per cell and cross hybridization was estimated to occur if closely
related genes have >70% to 80% sequence identity. These arrays have
been hybridized in a series of experiments with probes derived from
seeds, leaves, and roots of Arabidopsis. Analysis of expression ratios
between the different tissues has allowed the tissue-specific
expression patterns of many hundreds of genes to be described for the
first time. Approximately 25% of the 2,600 genes were expressed at
ratios  2-fold higher in seeds than leaves or roots and 10% at
ratios 10. Included in this list are a large number of proteins of
unknown function, and potential regulatory factors such as protein
kinases, phosphatases, and transcription factors. The Arabidopsis
arrays were also found to be useful for transcriptional profiling of
mRNA isolated from developing oilseed rape (Brassica
napus) seeds and expression patterns correlated well between
the two species.
1
This work was supported in part by the National
Science Foundation (grant no. DCB94-06466) and the Consortium for
Plant Biotechnology Research. We also acknowledge the Michigan
Agricultural Experiment Station for its support of this research.
2
Present address: Dow AgroSciences, 5101 Oberlin
Drive, San Diego, CA 92121.
3
Present address: Monsanto, 800 North Lindbergh
Boulevard, St. Louis, MO 63167.
4
Present address: The Institute for Genomic
Research, 9712 Medical Center Drive, Rockville, MD 20850.
*
Corresponding author; e-mail ohlrogge{at}pilot.msu.edu; fax
517-353-1926.
© 2000 American Society of Plant Physiologists
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