16S Metagenomic Sequencing kit (Illumina, San Diego, CA, USA) was used for library preparation. V3–V4 hypervariable regions of the bacterial 16S rRNA gene were amplified using the primers (5′-CCTACGGGNGGCWGCAG-3′ and 5′ GACTACHVGGGTATCTAATCC-3′) provided by the manufacturer and following the recommended protocol as described before (29 (link)). Library concentration was assessed by Qubit Fluorometric Quantitation (Invitrogen, Waltham, MA, USA). Short-read paired-end amplicon sequencing was performed using Illumina® MiSeq Instrument for 600 cycles.
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