title: MHC II amplicon sequencing harbour porpoise
design: We extracted total genomic DNA from skin or muscle tissue using one of the three following methods: NucleoSpin Tissue Kit, DNeasy Blood & Tissue Kit, or Phenol-Chloroform extraction. DNA concentration and quality were measured using a Qubit Fluorometer and Fragment Analyzer to ensure that chosen samples were not fragmented and at least 300ng of DNA per sample were available. To amplify exon 2 of all annotated genes,  PCRs were performed. For library preparation, PCR products were purified with MSB Spin PCRapace purification kit and based on Qubit measurements, the amount of product was estimated and diluted accordingly. After a blunt end repair reaction, P5/P7 adapters were ligated to the PCR products and purified with MinElute Purification Kit (Qiagen). The library products were sequenced with a 2x300 cycles MiSeq Reagent Kit v3 at the University of Potsdam, Germany.
identifiers.namespace: SUB14946514
identifiers.id: 26098