RNA-seq of B73 and GY, normal pool
To identify the genes controlling the  micro-endosperm trait, three different F2 populations were generated by  crossing the micro-endosperm high oil inbred line GY with other three normal  corn inbred lines, Jing724, B73 and Jing92,respectively,followed by  selfing.F2 seeds produced within each ear of F1 plants can be divided into 3  classes, including wild type(WT) normal seeds, translucent micro-endosperm  seeds and shrunken micro-endosperm seeds and the ratio of them is 9:4:3,  indicating that the micro-endosperm trait was controlled by two independent  recessive genes and the translucent micro-endosperm gene was epistatic to the  shrunken micro-endosperm gene. The RNAs of the shrunken micro-endosperm pool  and the normal endosperm pool from B73/GY F2 population were used for BSR-seq  analysis.