Development of Species-Specific Cichla Species eDNA Primers for Rapid Alien Invasive Species (AIS) Monitoring

DOI

10.2991/978-94-6463-166-1_7How to use a DOI?

Keywords

Species-specific primer; COI primer; e-DNA marker; Invasive species

Abstract

Locally known as top predator fishes, peacock bass or cichlids are invasive in Malaysia’s freshwater ecosystem. Due to the nature of these fish, which involves hiding beneath the water’s surface, detection probability for these species are often poor, especially when utilizing the traditional capture-survey method. As a result, measuring environmental DNA (eDNA) is a relatively new, non-invasive method that can be used to determine the range of these invasive fishes. Here, we outline the plan. For three selected invasive Cichla species C. kelberi, C. ocellaris, and C. monoculus it was necessary to develop small fragment (280–400 bp) specific-specific primers based on mitochondrial DNA (mtDNA) COI gene sequences. It was also necessary to determine how to extract high-quality DNA and e-DNA, as well as how to validate primers for specificity, (iv) developed and tested a new quantitative PCR (qPCR) assay to detect the presence of C. kelberi, and C. ocellaris, environmental DNA (eDNA) in water samples. The COI gene can be utilized to create species-specific primers for specific species, according to recent research. To improve the specificity of primers, a few primer-design factors must be changed. With recommendations for further references for the researcher, they were thoroughly examined. Furthermore, we discovered that e-DNA isolation must be completed within 22 days following capture in order to avoid producing false-negative results. Since just AGE (Agarose Gel Electrophoresis) analysis was required for the validation procedures, these data can be easily implemented in any fish genomics lab with a low-cost setting. Overall, eDNA analysis with species-specific primers represents a new monitoring tool in the detection of Aquatic Invasive Species (AIS) for management and conservation purpose.

Copyright

© 2023 The Author(s)

Open Access

Open Access This chapter is licensed under the terms of the Creative Commons Attribution-NonCommercial 4.0 International License (http://creativecommons.org/licenses/by-nc/4.0/), which permits any noncommercial use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license and indicate if changes were made.

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TY  - CONF
AU  - Nurul Fizatul Nabilah Osman
AU  - Adibah Abu Bakar
AU  - Ramizah Abdull Rahman
AU  - Syazwan Saidin
AU  - Intan Faraha A. Ghani
AU  - Amirrudin Ahmad
PY  - 2023
DA  - 2023/05/22
TI  - Development of Species-Specific Cichla Species eDNA Primers for Rapid Alien Invasive Species (AIS) Monitoring
BT  - Proceedings of the 3rd International Conference on Biology, Science and Education (IcoBioSE 2021)
PB  - Atlantis Press
SP  - 39
EP  - 50
SN  - 2468-5747
UR  - https://doi.org/10.2991/978-94-6463-166-1_7
DO  - 10.2991/978-94-6463-166-1_7
ID  - Osman2023
ER  -