Amplicon sequencing of Maize: Sample 20
A single plant was used for extraction of genomic DNA according to the Berendzen method (Berendzen et al, 2005). DNA samples were quantified using Qubit. 117 amplicons for 67 genes were amplified in a multiplex PCR per sample, while adding sample-specific indices (Floodlight Genomics, USA). Illumina sequencing adapters were ligated using the KAPA Hyper Prep PCR-free Kit according to manufacturer directions (Kapa Biosystems, USA) and libraries were paired-end sequenced (PE-150) on an Illumina HiSeqX instrument (Admera Health, USA). All read data were demultiplexed, barcodes and adapter sequences were removed, and reads were trimmed and merged.