2024-2025, Goat intestinal fecal microbiota sequencing

The collected fecal samples were sent to Novogene for amplicon sequencing analysis of the V3-V4 region of the bacterial 16S rRNA gene. The sequencing results were used to construct libraries and perform quantitative analysis. Based on the required effective library concentration and data volume, quantified libraries were pooled and sequenced on the Illumina MiSeq platform. Raw data were processed using Fastp software to filter and remove chimeric sequences, yielding final high-quality valid data. Additionally, denoising was performed with DADA2 in QIIME2 software (version QIIME2-20202) to obtain Amplicon Sequence Variants (ASVs). Taxonomic annotation was conducted using the QIIME2 software. The relative abundance of microbial taxa was calculated as follows: at a given taxonomic level (phylum, class, order, family, or genus), the relative abundance of a specific species was defined as the number of tags corresponding to an ASV divided by the total number of tags clustered from all ASVs in the sample. The H group represents fecal samples from healthy goats, while the C.p group represents fecal samples from clinically abscess-affected goats.