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RNA-seq

RNA-seq

RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases.
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...

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Updated: Jan 19, 2026

Ultralow Input Genome Sequencing Library Preparation from a Single Tardigrade Specimen

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Published on: July 15, 2018

Full-Length transcriptome assembly and SSR marker development for Spinibarbus hollandi using PacBio SMRT sequencing.

Sixun Li¹, Jie Lai¹, Mengmeng Wu¹

¹South China Biodiversity Research Center, School of Life Sciences, Guangzhou University, Guangzhou, China.

Scientific Reports

|January 17, 2026

Summary

We generated the first full-length transcriptome for Spinibarbus hollandi, a key fish species. This resource aids research in functional genomics, breeding, and conservation.

Keywords:

Alternative splicing Full-length transcriptome Gene annotation PacBio sequencing Simple sequence repeat Spinibarbus hollandi

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A Converging Strategy for the Generation of a Virtually Sequenced cDNA Library from Unreferenced Pacific Oysters

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Published on: June 13, 2019

Area of Science:

Aquatic Genomics
Transcriptomics
Fish Biology

Background:

Spinibarbus hollandi is economically important in China for aquaculture and ornamental trade.
Limited full-length transcriptomic data hinders genetic research and breeding efforts for this species.

Purpose of the Study:

To construct the first comprehensive, multi-tissue, full-length transcriptome of Spinibarbus hollandi.
To identify genetic resources including long non-coding RNAs and simple sequence repeats (SSRs) for S. hollandi.

Main Methods:

Utilized PacBio single-molecule real-time sequencing for transcriptome assembly.
Performed annotation, alternative splicing analysis, and SSR discovery.
Screened for highly polymorphic SSR loci.

Main Results:

Assembled 23,403 non-redundant transcripts (15,197 unigenes) with a mean length of 2,147 bp.
Annotated 95.85% of unigenes and identified 373 alternative splicing events.
Discovered 7,449 SSR loci, including 13 highly polymorphic loci suitable for population studies.

Conclusions:

This study provides a foundational transcriptomic resource for Spinibarbus hollandi.
The identified genetic markers and data support functional gene research, marker-assisted breeding, and germplasm conservation efforts.