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Article

Using Optimal Environmental DNA Method to Improve the Fish Diversity Survey—From Laboratory to Aquatic Life Reserve

by 1,†, 2,†, 2, 2,* and 1,*
1
China National Environmental Monitoring Centre, Beijing 100012, China
2
School of Environment, Beijing Normal University, Beijing 100875, China
*
Authors to whom correspondence should be addressed.
Co-first authors.
Academic Editor: Rui Cortes
Water 2021, 13(11), 1468; https://doi.org/10.3390/w13111468
Received: 20 March 2021 / Revised: 20 May 2021 / Accepted: 21 May 2021 / Published: 24 May 2021
(This article belongs to the Section Biodiversity and Functionality of Aquatic Ecosystems)
Conserving aquatic ecosystems requires efficient tools to accurately assess the biodiversity of aquatic species. However, existing knowledge is insufficient in terms of the reliability and the comparability of methods measuring fish diversity. Environmental DNA (eDNA), as a promising method, was used to detect fish taxa in this study. We optimized the eDNA method in the laboratory, and applied the optimal eDNA method to survey fish diversity in a natural aquatic life reserve. We simulated necessary steps of the eDNA method in the lab to increase the confidence of the field survey. Specifically, we compared different eDNA sampling, extraction, and sequencing strategies for accurately capturing fish species of the target area. We found that 1L water samples were sufficient for sampling eDNA information of the majority taxa. The filtration was more effective than the centrifugal precipitation for the eDNA extraction. The cloning sequencing was better than the high-throughput sequencing. The field survey showed that the Shannon–Wiener diversity index of fish taxa was the highest in Huairou Reservoir. The diversity index also showed seasonal changes. The accuracy rate of detecting fish taxa was positively correlated with the eDNA concentration. This study provides a scientific reference for an application of the eDNA method in terms of surveying and estimating the biodiversity of aquatic species. View Full-Text
Keywords: environmental DNA; method optimization; Shannon–Wiener diversity; seasonal differences; aquatic ecosystems environmental DNA; method optimization; Shannon–Wiener diversity; seasonal differences; aquatic ecosystems
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MDPI and ACS Style

Li, W.-P.; Liu, Z.-F.; Guo, T.; Chen, H.; Xie, X. Using Optimal Environmental DNA Method to Improve the Fish Diversity Survey—From Laboratory to Aquatic Life Reserve. Water 2021, 13, 1468. https://doi.org/10.3390/w13111468

AMA Style

Li W-P, Liu Z-F, Guo T, Chen H, Xie X. Using Optimal Environmental DNA Method to Improve the Fish Diversity Survey—From Laboratory to Aquatic Life Reserve. Water. 2021; 13(11):1468. https://doi.org/10.3390/w13111468

Chicago/Turabian Style

Li, Wen-Pan, Zi-Fang Liu, Tong Guo, He Chen, and Xin Xie. 2021. "Using Optimal Environmental DNA Method to Improve the Fish Diversity Survey—From Laboratory to Aquatic Life Reserve" Water 13, no. 11: 1468. https://doi.org/10.3390/w13111468

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