The viability and potential of environmental DNA (eDNA) detection of freshwater fish based on current genetic resources in Malaysia

Kaviarasu Munian, and Farah Farhana Ramli, and Nursyuhada Othman, and Hidayah Haris, and Nur Hartini Sariyati, and Nur Aina Amira Mahyudin, and Mohd Faudzir Najmuddin, and Mohd Shahfiz Azman, and Muhammad Abu Bakar Abdul-Latiff, (2024) The viability and potential of environmental DNA (eDNA) detection of freshwater fish based on current genetic resources in Malaysia. Sains Malaysiana, 53 (1). pp. 11-21. ISSN 0126-6039


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Environmental DNA (eDNA) metabarcoding is a promising tool for regular biological monitoring, especially for freshwater fish, which are facing tremendous threats worldwide. The application of eDNA detection is a dramatic improvement on common methods of biomonitoring as it produces tangible results in a short time with low effort and little expense. However, the accuracy of the technique is largely dependent on the availability of genetic references for the target organisms. In this study, we investigated the availability of genetic resources for freshwater fish in Malaysia in three public depositories, National Center for Biotechnology Information (NCBI), Barcode of Life Data System (BOLD), and Mitochondrial Genome Database of Fish (MitoFish), focusing on seven targeted genes of mitochondrial DNA. We found that only 68.6% of freshwater fish found in Malaysia had information on at least one of the seven targeted genes, with data on Cytochrome C Oxidase Subunit I being most commonly available. Genetic information for threatened and endemic species were underrepresented (33.3%-41.7%), yet fish of commercial value and invasive species were well explored genetically. Although there is still room for improvement to achieve comprehensive and reliable genetic resource information for freshwater fish in Malaysia, the application of eDNA metabarcoding is still highly relevant. This is since the current decline in freshwater fish diversity in Malaysia is alarming and because the technique will assist in the ongoing effort to generate new genetic references for Malaysian freshwater fish.

Item Type:Article
Keywords:Environmental DNA; Cytochrome b; Cytochrome C Oxidase Subunit I; Freshwater fish; Metabarcoding and Next-Generation Sequencing (NGS)
Journal:Sains Malaysiana
ID Code:23594
Deposited By: Siti Zarenah Jasin
Deposited On:21 May 2024 02:18
Last Modified:21 May 2024 02:18

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