16S of Mus musculus: nasal wash from PR8 infected, SPF, C57BL/6J
DNA was extracted with Allprep Powerfecal DNA/RNA Kit (Qiagen). The V4 region was amplified by PCR on a Fluidigm access array using primers V4 515F (5- GTGCCAGCMGCCGCGGTAA-3) and V4 806R (5- GGACTACHVGGGTWTCTAAT-3) and sequenced on the Illumina MiSeq V2 platform with 250 bp paired-end reads.