Identification and characterization of metabolite quantitative trait loci in tomato leaves and comparison with those reported for fruits and seeds

Introduction To date, most studies of natural variation and metabolite quantitative trait loci (mQTL) in tomato have focused
on fruit metabolism, leaving aside the identification of genomic regions involved in the regulation of leaf metabolism.
Objective This study was conducted to identify leaf mQTL in tomato and to assess the association of leaf metabolites and
physiological traits with the metabolite levels from other tissues.
Methods The analysis of components of leaf metabolism was performed by phenotypying 76 tomato ILs with chromosome
segments of the wild species Solanum pennellii in the genetic background of a cultivated tomato (S. lycopersicum) variety
M82. The plants were cultivated in two different environments in independent years and samples were harvested from mature
leaves of non-flowering plants at the middle of the light period. The non-targeted metabolite profiling was obtained by gas
chromatography time-of-flight mass spectrometry (GC-TOF-MS). With the data set obtained in this study and already published
metabolomics data from seed and fruit, we performed QTL mapping, heritability and correlation analyses.
Results Changes in metabolite contents were evident in the ILs that are potentially important with respect to stress responses
and plant physiology. By analyzing the obtained data, we identified 42 positive and 76 negative mQTL involved in carbon
and nitrogen metabolism.
Conclusions Overall, these findings allowed the identification of S. lycopersicum genome regions involved in the regulation
of leaf primary carbon and nitrogen metabolism, as well as the association of leaf metabolites with metabolites from seeds
and fruits.