*3.7. Genome Sequencing*

The samples were prepared with the Nextera® XT DNA sample preparation kit from Illumina (Illumina, San Diego, CA, USA) following the manufacturer's protocol. Afterwards the samples were pooled and sequenced on the Illumina MiSeq using the MiSeq® (Illumina, San Diego, CA, USA) Reagent Kit v3 600 cycles sequencing chemistry. The library was clustered to a density of approximately 1200 K/mm2.
