QTL mapping
We used genotypic means and plasticity measurements for every trait as input phenotypes to decipher the genetic architecture of tomato response to abiotic stresses. Considering the 10 traits evaluated, a total of 104 unique QTLs were identified for genotypic means and the plasticity parameters (Supplemental Table 4). The proportion of QTLs shared between mean and plasticity was about 21%, lower than QTLs that were plasticity or mean specific (79%). Considering only the 63 plasticity QTLs, 11 and 7 QTLs were specifically detected with the SCv and VAR plasticity parameters. Plasticity QTLs were detected on every chromosome (Figure 3); however, the chromosome 1 showed the highest number with 12 plasticity QTLs. In this chromosome, plasticity QTLs were detected at least once for every trait. The chromosome 11 carried a total of 11 plasticity QTLs and interestingly all these QTL (except ppnflw11.1) co-localized in a short region of the chromosome between 52 and 55 Mbp. The chromosomes 5, 6 and 10 showed the lowest number (only 3) of plasticity QTLs. For QTLs detected on genotypic means, the number of QTLs per chromosome varied from 2 QTLs on chromosomes 6 and 10 to one QTL on chromosome 1.