Microbial sequencing of bacteria: fermented soybean residue
Samples were labeled according to the experimental design groups and subjected to paired-end sequencing on the Illumina MiSeq platform. Genomic DNA was extracted from 0.25 g of each sample using the QIAamp DNA Stool Mini Kit (QIAGEN, Hilden, Germany) according to the manufacturers protocol. DNA concentration and purity were assessed using a NanoDrop ND-1000 spectrophotometer (Thermo Fisher Scientific, Waltham, MA, USA). The V3-V4 hypervariable region of the bacterial 16S rRNA gene was amplified using primers 338F (5-ACTCCTACGGGAGGCAGCA-3) and 806R (5-GGACTACHVGGGTWTCTAAT-29). PCR products were purified using the QIAGEN QIAquick PCR Purification Kit and quantified using Pico Green fluorescence (Invitrogen, Carlsbad, CA, USA). Sequencing was performed on an Illumina MiSeq platform following the manufacturers protocols.