Raw Data for the Analysis of Fish Gut Microbial Diversity in the Middle Reaches of the Jialing River

The studied species are: Leiocassis crassilabris (CCW), Carassius auratus (JY), Cyprinus carpio (LY), Siniperca chuatsi (G), Hemibagrus macropterus (DQH), Hemibarbus maculatus (HH), Ctenopharyngodon idellus (CY), and Xenocypris davidi (HWG).The data were generated by paired-end sequencing (2 × 250 bp) of the bacterial 16S rRNA gene V3-V4 region on an Illumina NextSeq 2000 platform.

Raw sequencing reads are stored in the rawData/ directory, containing raw forward (R1.raw.fastq.gz) and reverse reads (R2.raw.fastq.gz) for each sample. These reads were processed using the described pipeline: quality control with Fastp (v0.19.6), assembly with FLASH (v1.2.11), and clustering into operational taxonomic units at 97% similarity using the UPARSE workflow within USEARCH (v7.1). The resulting high-quality, assembled sequences are archived in the valid/ directory (*.fastq.gz).