title: Brassica juncea - B. fruticulosa introgression lines: AD4-S62
design: Total 0.3 to 0.6 g genomic DNA was digested completely with the optimized restriction enzyme set, in order to obtain a suitable marker density.  Each end of digested fragment was respectively ligated with P1 and P2 barcoded-adapter. Tags containing both P1 and P2 adapters were amplified through PCR. After DNA fragments of different samples were pooled, the desired fragments of DNA were recovered from gel electrophoresis. To check the prepared DNA libraries, Qubit 2.0 fluorometer was firstly used to determine the concentration of the library. After dilution to 1 ng/ul, the Agilent 2100 bioanalyzer was used to assess the insert size. And finally the quantitative real-time PCR (qPCR) was performed to detect the effective concentration of each library. The qualified DNA libraries were pooled according to their effective concentration as well as the expected data production. Pair-end sequencing were performed on Illumina HiSeq platform, with the read length of 144 bp at each end