JXB Advance Access published online on June 13, 2008
Journal of Experimental Botany, doi:10.1093/jxb/ern146
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© 2008 The Author(s).
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
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RESEARCH PAPER |
A candidate gene survey of quantitative trait loci affecting chemical composition in tomato fruit
1GaTE Lab, Departamento de Botânica-IB-USP, Brasil. Rua do Matão, 277, 05508-900, São Paulo, SP, Brazil
2Instituto de Biotecnología, Instituto Nacional de Tecnología Agrícola (IB-INTA), PO Box 25, B1712WAA Castelar, Argentina (partner group of the Max Planck Institute for Molecular Plant Physiology, Potsdam-Golm, Germany)
3Facultad de Ciencias Químicas Universidad Nacional de Córdoba, CC 5000, Haya de la Torre y Medina Allende, Córdoba, Argentina
4Max Planck Institute for Molecular Plant Physiology, Wissenschaftspark Golm, Am Mühlenberg 1, Potsdam-Golm, D-14 476, Germany
To whom correspondence should be addressed. E-mail: magda1708{at}yahoo.com. Correspondence may also be addressed to F. Carrari. Email: fcarrari{at}cnia.inta.gov.ar
In tomato, numerous wild-related species have been demonstrated to be untapped sources of valuable genetic variability, including pathogen-resistance genes, nutritional, and industrial quality traits. From a collection of S. pennellii introgressed lines, 889 fruit metabolic loci (QML) and 326 yield-associated loci (YAL), distributed across the tomato genome, had been identified previously. By using a combination of molecular marker sequence analysis, PCR amplification and sequencing, analysis of allelic variation, and evaluation of co-response between gene expression and metabolite composition traits, the present report, provides a comprehensive list of candidate genes co-localizing with a subset of 106 QML and 20 YAL associated either with important agronomic or nutritional characteristics. This combined strategy allowed the identification and analysis of 127 candidate genes located in 16 regions of the tomato genome. Eighty-five genes were cloned and partially sequenced, totalling 45 816 and 45 787 bases from S. lycopersicum and S. pennellii, respectively. Allelic variation at the amino acid level was confirmed for 37 of these candidates. Furthermore, out of the 127 gene-metabolite co-locations, some 56 were recovered following correlation of parallel transcript and metabolite profiling. Results obtained here represent the initial steps in the integration of genetic, genomic, and expressional patterns of genes co-localizing with chemical compositional traits of the tomato fruit.
Key words: Candidate genes, introgressed lines, metabolite content, quantitative trait loci, Solanum lycopersicum, Solanum pennelli, tomato
* These authors contributed equally to this work.
Received 18 February 2008; Revised 3 April 2008 Accepted 29 April 2008
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