ddradseq of Quiscalus mexicanus, two populations
The DNA extracts are run through a PCR thermocycler where the fragments are digested with a combination of two restriction enzymes (SbfI-HF and MspI) and 20 different adapters attached to the end of the DNA pieces. A 1% agarose gel is run to ensure the proper digestion and ligation of the DNA samples. The samples are then cleaned up using MagNA beads and size selected using BluePippin for a prespecified length (between 400-700 base pairs). After the samples return from size selection, they are amplified using a low-cycle PCR process and pooled together to be sent in to be sequenced.