Total DNA was extracted using the DNeasy UltraClean Microbial Kit (Qiagen, Hilden, Germany) according to the protocol provided. Quantity, purity, and length of the total genomic DNA was assessed using a Qubit 4.0 fluorometer with the Qubit dsDNA HS Assay Kit (Thermo Fisher Scientific), a DS-11 FX spectrophotometer (DeNovix, Wilmington, USA) and a FEMTO Pulse System with a Genomic DNA 165 kb Kit (Agilent, Basel, Switzerland), respectively. Sequencing libraries were made using an Illumina DNA Prep Library Kit (Illumina, San Diego, USA) in combination with IDT for Illumina DNA/RNA UD Indexes Set C and Tagmentation according to the Illumina DNA Prep Reference Guide. The input DNA was set at 200 ng and 5 PCR cycles were employed to amplify the fragmented DNA. Pooled DNA libraries were sequenced paired end on a NovaSeq 6000 SP Reagent Kit v1 (300 cycles) on an Illumina NovaSeq 6000 instrument.