Illumina MiSeq paired end sequencing
An approximately 460 bp sized fragment of the V3 / V4 region of the 16S rRNA gene was amplified for each of the DNA samples beginning with 12.5 ng of DNA per Illumina's recommended protocol outlined in the 16S Metagenomic Sequencing Library Preparation protocol (Illumina, San Diego, CA). Following generation of the amplicons, dual indices and Illumina sequencing adapters were added using the Nextera XT Index kit (Illumina catalog # FC‐131‐1001). Resultant libraries were multiplexed and 300 bp paired end sequencing was performed on an Illumina MiSeq instrument using V3 chemistry per Illumina's recommendations.