Illumina MiSeq sequencing of SAMD00068630
V1-V3 16S rRNA was amplified with Phusion High-Fidelity polymerase (Thermo Scientific, Waltham, MA) using dual-indexed coded primers, normalized, pooled and paired-end sequenced (2 x 300bp) on an Illumina MiSeq (Illumina, San Diego, CA) in the University of Rochester Genomics Research Center. The 16S rRNA bacterial sequence reads were assessed for quality and analyzed using phylogenetic and Operational Taxonomic Unit (OTU) methods using the Quantitative Insights into Microbial Ecology (QIIME) software, version 1.9.1. Read pairs were assembled using fastq-join from the ea-utils package (http://code.google.com/p/ea-utils), requiring at least 20 bases of overlap and allowing a maximum of 10% mismatched bases. 