16S rRNA gene amplicon sequencing of zebrafish gut microbiota using both Illumina (V3–V4) and Oxford Nanopore (V1–V9) to compare platform performance and taxonomic resolution.

This study investigates the zebrafish gut microbiota by 16S rRNA gene amplicon sequencing using both Illumina and Oxford Nanopore platforms. Short-read sequencing of the V3–V4 region was performed on an Illumina NovaSeq, and both V3–V4 and full-length V1–V9 regions were sequenced on an Oxford Nanopore device. The dataset enables direct comparison of platform performance, accuracy, and taxonomic resolution for zebrafish microbiome profiling.