16S rDNA sequencing of murine fecal microbiome after oral vaccination and diet modulation
Bacteria from murine fecal samples were sorted based on bound IgA or left unsorted to obtain three populations (unsorted-whole, IgA-positive, and IgA-negative). DNA 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).