ESTs, cDNA microarrays, and gene expression profiling: tools for dissecting plant physiology and development.
Gene expression profiling holds tremendous promise for dissecting the regulatory mechanisms and transcriptional networks that underlie biological processes. Here we provide details of approaches used by others and ourselves for gene expression profiling in plants with emphasis on cDNA microarrays and discussion of both experimental design and downstream analysis. We focus on methods and techniques emphasizing fabrication of cDNA microarrays, fluorescent labeling, cDNA hybridization, experimental design, and data processing. We include specific examples that demonstrate how this technology can be used to further our understanding of plant physiology and development (specifically fruit development and ripening) and for comparative genomics by comparing transcriptome activity in tomato and pepper fruit.
Alba
Rob
R
Boyce Thompson Institute for Plant Research, Cornell University Campus, Ithaca, NY, USA.
Fei
Zhangjun
Z
Payton
Paxton
P
Liu
Yang
Y
Moore
Shanna L
SL
Debbie
Paul
P
Cohn
Jonathan
J
D'Ascenzo
Mark
M
Gordon
Jeffrey S
JS
Rose
Jocelyn K C
JK
Martin
Gregory
G
Tanksley
Steven D
SD
Bouzayen
Mondher
M
Jahn
Molly M
MM
Giovannoni
Jim
J
D018076:DNA, Complementary / Q000235:genetics*; D020224:Expressed Sequence Tags; D005456:Fluorescent Dyes; D020869:Gene Expression Profiling; D009693:Nucleic Acid Hybridization; D020411:Oligonucleotide Array Sequence Analysis
D018076:DNA, Complementary; D005456:Fluorescent Dyes