Establishing a COI DNA barcoding reference database for Taiwanese coastal fish species from egg and larvae specimens

By

Shao, Kwang-tsao
Ko, Hui-Ling
Chiu, Yung-Chieh
Huang, Hsin-Kai
Chen, Ya-Fang
Chang, Yen-Wei

Type

Article

Date of Publication

2025-7-30

Original Publication

ZooKeys

Volume

1247

Pages

207--216

Subjects

barcoding region , COI , DNA barcoding , DNA reference database , Edna , Fish eggs , Fish larvae , species identification

Contributed by

Pensoft Publishers

Language

English

Published by

Sofia, Bulgaria Pensoft Publishers

Identifiers

DOI: https://doi.org/10.3897/zookeys.1247.151795

 

Abstract

Fish eggs and larval stages are essential components of marine ecosystems and play important roles in sustaining marine food webs. However, the egg and larval stages often lack distinct diagnostic characteristics, making it challenging to identify species solely based on their morphology. In this study, we applied a DNA barcoding approach targeting the cytochrome c oxidase subunit I gene to establish a comprehensive reference for fish eggs and larval material in coastal waters off Taiwan. A total of 7602 records of fish eggs and larvae were collected from marine coastal waters surrounding Taiwan between 2004 and 2023 and identified using a DNA barcoding approach. By comparing our newly generated DNA barcoding sequences with records from public reference databases, we identified 1112 different fish taxa encompassing 24 orders, 158 families, 500 genera, and 844 fish species. This DNA barcoding referencing effort will facilitate future studies on the early life stages of Taiwanese coastal marine fish communities. In addition, it will also provide an important baseline for the development of new methods, such as eDNA and DNA metabarcoding diet analysis. This database provides comprehensive spatial and temporal distribution data of fish eggs and larvae in the waters surrounding Taiwan, contributing to a better understanding of fish spawning seasons, spawning grounds, and resource fluctuations. This database enhances the accuracy of species identification and serves as a scientific foundation for biodiversity conservation and fishery resource management.