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Updated: May 24, 2026

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

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

Published on: June 13, 2019

Development of genomic resources for Pacific Herring through targeted transcriptome pyrosequencing.

Steven B Roberts¹, Lorenz Hauser, Lisa W Seeb

¹School of Aquatic and Fishery Sciences, University of Washington, Seattle, Washington, United States of America. sr320@uw.edu

|March 3, 2012

Summary

Genomic resources were developed for Pacific herring (Clupea pallasii) to aid research. These resources revealed genetic markers for population structure and immune function, crucial for conservation.

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Area of Science:

Marine Biology
Genomics
Fisheries Science

Background:

Pacific herring (Clupea pallasii) fisheries are vital but threatened by environmental and human impacts.
Understanding herring population structure is essential for effective fisheries management and conservation.

Purpose of the Study:

To generate genomic resources for Pacific herring research.
To develop methods for single nucleotide polymorphism (SNP) discovery and validation.
To identify genetic markers differentiating herring populations.

Main Methods:

High-throughput pyrosequencing of transcriptome libraries from liver and testes.
Bioinformatic analysis to identify and annotate over 40,000 contigs.
SNP discovery and validation using Sanger sequencing and high-resolution melt-curve analysis.

Main Results:

An annotated transcriptome of Pacific herring was created.
Over 10,000 potential SNPs were identified, with 96 validated.
Five SNPs showed differentiation between ocean basins, and one immune-related SNP distinguished Gulf of Alaska populations.

Conclusions:

The developed genomic resources support organismal and population-level research.
Identified SNPs offer potential for population structure analysis and marker development.
These findings provide a foundation for environmental physiology studies in Pacific herring.