Spinibarbus hollandi is an economically significant subtropical fish in China, valued for both ornamental and aquaculture purposes. However, the full-length transcriptomic resources for this species remain scarce. To address this gap, we constructed the first multi-tissue, full-length transcriptome of S. hollandi using PacBio single-molecule real-time sequencing. We assembled 23,403 non-redundant transcripts, including 15,197 unigenes, with a mean length of 2,147 bp and an N50 of 2,868 bp. Among these, 14,567 unigenes (95.85%) were annotated in public databases. Our analysis identified 373 alternative splicing events, with retained intron being the most common type. We also predicted 2,397 long non-coding RNAs. Furthermore, a comprehensive screening revealed 7,449 simple sequence repeat (SSR) loci, comprising 1,198 compound and 6,251 perfect SSRs, with an occurrence frequency of 30.96%. Di- and tri-nucleotide repeats were the predominant types. Thirteen highly polymorphic SSR loci showed robust polymorphism across four geographical populations. This study provides a crucial data foundation and genetic resource for functional gene research, molecular marker-assisted breeding, and germplasm conservation in S. hollandi.
Li et al. (Sat,) studied this question.