16S rDNA sequencing of murine fecal microbiome after oral vaccination
DNA from bacteria found in murine fecal samples was extracted and the V4 region of the 16S rDNA gene was amplified using PCR with the Schloss SOP. These amplicons were dual-indexed and read on an Illumina MiSeq with a paired-end 500 cycle kit (2x250bp reads). Samples were collected longitudinally from mice that were vaccinated orally with either wild-type Lactobacillus acidophilus, L. acidophilus expressing an OVA peptide, or a negative control sham buffer.