Prediction of environmental response in field-grown rice using expression-dynamics-QTL

摘要: Organisms respond to the fluctuations in field environments differently throughout their lives depending on genetic variations. However, how such variations affect environmental responses of organisms under conditions, that is, genotype × environment interaction (G×E), remains unclear. In present study, we developed a method identify loci influencing gene expression dynamics (GED) field-grown rice. We cultivated chromosome segment substitution lines (CSSLs) from Koshihikari and Takanari rice varieties1 field, conducted approximately 900 time-series RNA sequencing (RNA-Seq) (bihourly-sampling for 16 d during 4 months). This novel analytical approach identified more than one thousand quantitative trait (edQTLs), which cause differences GED between Takanari. Based edQTLs, successfully predicted different training cultivars with complex genotypes CSSLs. Results demonstrated integrating information via transcriptome can help predict response conditions. anticipate edQTLs identification will understand G×E natural is difficult assess laboratory equipments2. As variation conditions converge transcriptome-based prediction functions effectively3,4, based contribute crop breeding by increasing accuracy diverse