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First published online October 21, 2005; 10.1105/tpc.105.036053

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The Plant Cell 17:2954-2965 (2005)
© 2005 American Society of Plant Biologists

Transcriptome and Selected Metabolite Analyses Reveal Multiple Points of Ethylene Control during Tomato Fruit Development{boxw}

Rob Albaa, Paxton Paytona,1, Zhanjun Feia,2, Ryan McQuinnb, Paul Debbiea, Gregory B. Martina,c, Steven D. Tanksleyd and James J. Giovannonia,b,3

a Boyce Thompson Institute for Plant Research, Cornell University Campus, Ithaca, New York, 14853
b U.S. Department of Agriculture, Agricultural Research Service, Plant, Soil, and Nutrition Laboratory, Ithaca, New York, 14853
c Department of Plant Pathology, Cornell University, Ithaca, New York, 14853
d Department of Plant Breeding, Cornell University, Ithaca, New York, 14853

3 To whom correspondence should be addressed. E-mail jjg33{at}cornell.edu; fax 607-254-2958.

Transcriptome profiling via cDNA microarray analysis identified 869 genes that are differentially expressed in developing tomato (Solanum lycopersicum) pericarp. Parallel phenotypic and targeted metabolite comparisons were employed to inform the expression analysis. Transcript accumulation in tomato fruit was observed to be extensively coordinated and often completely dependent on ethylene. Mutation of an ethylene receptor (Never-ripe [Nr]), which reduces ethylene sensitivity and inhibits ripening, alters the expression of 37% of these 869 genes. Nr also influences fruit morphology, seed number, ascorbate accumulation, carotenoid biosynthesis, ethylene evolution, and the expression of many genes during fruit maturation, indicating that ethylene governs multiple aspects of development both prior to and during fruit ripening in tomato. Of the 869 genes identified, 628 share homology (E-value ≤1 x 10–10) with known gene products or known protein domains. Of these 628 loci, 72 share homology with previously described signal transduction or transcription factors, suggesting complex regulatory control. These results demonstrate multiple points of ethylene regulatory control during tomato fruit development and provide new insights into the molecular basis of ethylene-mediated ripening.




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