Identification and Mode of Inheritance of Quantitative Trait Loci for Secondary Metabolite Abundance in Tomato

A large-scale metabolic quantitative trait loci (mQTL) analysis was performed on the well-characterized Solanum pennellii introgression lines to investigate the genomic regions associated with secondary metabolism in tomato fruit pericarp. In total, 679 mQTLs were detected across the 76 introgressio...

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Published in:	The Plant cell Vol. 27; no. 3; pp. 485 - 512
Main Authors:	Alseekh, Saleh, Tohge, Takayuki, Wendenberg, Regina, Scossa, Federico, Omranian, Nooshin, Li, Jie, Kleessen, Sabrina, Giavalisco, Patrick, Pleban, Tzili, Mueller-Roeber, Bernd, Zamir, Dani, Nikoloski, Zoran, Fernie, Alisdair R.
Format:	Journal Article
Language:	English
Published:	England American Society of Plant Biologists 01-03-2015
Subjects:	Biosynthetic Pathways - genetics Chromatography, Liquid Chromosome Mapping Chromosomes, Plant - genetics Datasets Gene Expression Profiling Gene Expression Regulation, Plant Genes Genes, Plant Genetic Association Studies Genetic inheritance Heritability Inbreeding Inheritance Patterns - genetics Large-Scale Biology LARGE-SCALE BIOLOGY ARTICLES Lycopersicon esculentum Mass Spectrometry Metabolism Metabolites Metabolome - genetics Metabolomics Phenotype Phenotypic traits Plant cells Plant Proteins - genetics Plant Proteins - metabolism Plants Polymorphism, Genetic Quantitative trait loci Quantitative Trait Loci - genetics Reproducibility of Results Secondary Metabolism - genetics Solanum Solanum - genetics Solanum - growth & development Solanum - metabolism Transcription Factors - metabolism
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Summary:	A large-scale metabolic quantitative trait loci (mQTL) analysis was performed on the well-characterized Solanum pennellii introgression lines to investigate the genomic regions associated with secondary metabolism in tomato fruit pericarp. In total, 679 mQTLs were detected across the 76 introgression lines. Heritability analyses revealed that mQTLs of secondary metabolism were less affected by environment than mQTLs of primary metabolism. Network analysis allowed us to assess the interconnectivity of primary and secondary metabolism as well as to compare and contrast their respective associations with morphological traits. Additionally, we applied a recently established real-time quantitative PCR platform to gain insight into transcriptional control mechanisms of a subset of the mQTLs, including those for hydroxycinnamates, acyl-sugar, naringenin chalcone, and a range of glycoalkaloids. Intriguingly, many of these compounds displayed a dominant-negative mode of inheritance, which is contrary to the conventional wisdom that secondary metabolite contents decreased on domestication. We additionally performed an exemplary evaluation of two candidate genes for glycolalkaloid mQTLs via the use of virus-induced gene silencing. The combined data of this study were compared with previous results on primary metabolism obtained from the same material and to other studies of natural variance of secondary metabolism.
Bibliography:	ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23 These authors contributed equally to this work. www.plantcell.org/cgi/doi/10.1105/tpc.114.132266 The author responsible for distribution of materials integral to the findings presented in this article in accordance with the policy described in the Instructions for Authors (www.plantcell.org) is: Alisdair R. Fernie (fernie@mpimp-golm.mpg.de).
ISSN:	1040-4651 1532-298X
DOI:	10.1105/tpc.114.132266