1. ESTs, cDNA microarrays, and gene expression profiling: tools for dissecting plant physiology and development
- Author
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Mark D'Ascenzo, Molly Jahn, Jonathan Cohn, Steven D. Tanksley, Yang Liu, Rob Alba, Zhangjun Fei, Jeffrey S. Gordon, Shanna Moore, Gregory B. Martin, Jocelyn K. C. Rose, Paxton Payton, James J. Giovannoni, Mondher Bouzayen, Paul Debbie, Génomique et Biotechnologie des Fruits (GBF), Institut National de la Recherche Agronomique (INRA)-École nationale supérieure agronomique de Toulouse [ENSAT]-Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées, Institut National de la Recherche Agronomique - INRA (FRANCE), Institut National Polytechnique de Toulouse - Toulouse INP (FRANCE), and Cornell University (USA)
- Subjects
0106 biological sciences ,DNA, Complementary ,[SDV.BIO]Life Sciences [q-bio]/Biotechnology ,Agronomie ,[SDV.SA.AGRO]Life Sciences [q-bio]/Agricultural sciences/Agronomy ,Genomics ,Biotechnologies ,Plant Science ,Biology ,01 natural sciences ,Transcriptome ,03 medical and health sciences ,Complementary DNA ,Gene expression ,Genetics ,[SDV.BV]Life Sciences [q-bio]/Vegetal Biology ,Digital expression analysis ,Gene ,Expression profiling ,Fluorescent Dyes ,Oligonucleotide Array Sequence Analysis ,030304 developmental biology ,2. Zero hunger ,Comparative genomics ,0303 health sciences ,Expressed sequence tag ,Gene Expression Profiling ,fungi ,Nucleic Acid Hybridization ,food and beverages ,Cell Biology ,Gene expression profiling ,Expressed sequence tags ,Biologie végétale ,010606 plant biology & botany - Abstract
International audience; 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.
- Published
- 2004
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