DNA was quantified using Qubit fluorometer and Quant-iT dsDNA HS Assay kits to obtain accurate concentration values. A Nanodrop instrument was then employed to determine DNA quality through the 260/280 and 260/230 ratios (Table ). DNA libraries were prepared after PCR amplification, taking the same starting DNA from each sample. 50 ng of DNA were used for metagenomic library preparation using the xGen DNA library preparation kit (Cat. no. 10009822, Integrated DNA Technologies) using xGen UDI-UMI adapters (Cat. no. 10005903). The genomic DNA was enzymatically fragmented for 10 min and DNA libraries were prepared with PCR amplification. The average insert size of libraries was 400 bp. Prepared libraries were quantified using Qubit (DNA HS kit, Thermo) and quality checked with DNA HS kit on Bioanalyzer 2100 (Agilent). Sequencing was performed at the LCSB Genomics Platform (RRID: SCR_021931) on NextSeq2000 (Illumina) instrument using 2x150 bp read length.