Comparison of fish communities using environmental DNA metabarcoding and capture methods in a plateau Erhai Lake, China

Hong CHEN; Wanchao HE; Fenge YANG; Li LIAO; Chengjie YIN; Yushun CHEN; Longgen GUO

doi:10.1007/s00343-024-3130-0

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Comparison of fish communities using environmental DNA metabarcoding and capture methods in a plateau Erhai Lake, China

Ecology | Updated：2024-11-19

- Comparison of fish communities using environmental DNA metabarcoding and capture methods in a plateau Erhai Lake, China
- Comparison of fish communities using environmental DNA metabarcoding and capture methods in a plateau Erhai Lake, China
- 海洋湖沼学报(英文) 2024年42卷第5期页码：1597-1608
- Affiliations：
  
  1.State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan430072, China
  2.University of Chinese Academy of Sciences, Beijing100049, China
  3.Dali Monitoring Station of Yunnan Ecology and Environment Bureau, Dali671000, China
- Author bio：
  
  longgen@ihb.ac.cn
- Funds：
  
  the Project of Basic Investigation on Ecological Environment Quality of Erhai Lake(TPDL-2021-C265);the Ecological Effects, Population Regulation and Management Strategies of Invasion of Japanese Smelt (Hypomesus nipponensis) in Erhai Lake funded by the government of Dali City, Yunnan Province, China([2018]447)
- DOI：10.1007/s00343-024-3130-0
  中图分类号：
- 收稿：2023-07-04，
  
  网络首发：2024-01-16，
  
  纸质出版：2024-09-01
- Accepted：
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Comparison of fish communities using environmental DNA metabarcoding and capture methods in a plateau Erhai Lake, China[J]. 海洋湖沼学报(英文), 2024,42(5):1597-1608.

CHEN Hong,HE Wanchao,YANG Fenge,et al.Comparison of fish communities using environmental DNA metabarcoding and capture methods in a plateau Erhai Lake, China[J].Journal of Oceanology and Limnology,2024,42(05):1597-1608.
Comparison of fish communities using environmental DNA metabarcoding and capture methods in a plateau Erhai Lake, China[J]. 海洋湖沼学报(英文), 2024,42(5):1597-1608. DOI： 10.1007/s00343-024-3130-0.

CHEN Hong,HE Wanchao,YANG Fenge,et al.Comparison of fish communities using environmental DNA metabarcoding and capture methods in a plateau Erhai Lake, China[J].Journal of Oceanology and Limnology,2024,42(05):1597-1608. DOI： 10.1007/s00343-024-3130-0.

摘要

Abstract

Environmental DNA (eDNA) has been used as an important tool for fish diversity analysis

which can greatly solve the problems in traditional survey methodology. However

little work has been done on the actual monitoring accuracy of eDNA. In this study

we analyzed the current status of fish resources in Erhai Lake in Yunnan

SW China

by dividing the lake into three sectors according to habitat differences

and compared the results of eDNA and traditional capture methods to investigate the shortcomings of the current analysis of eDNA results. A total of 27 fish species were detected by eDNA and traditional capture methods

including 20 and 19 fish species

respectively

and additional differences in fish composition between the two methods. The alpha diversity showed higher fish abundance and lower fish diversity by eDNA method compared to the traditional capture method

demonstrating that eDNA was not superior for use in fish diversity analysis. Fish community similarity analysis showed that community differences were generally significant for eDNA (

0.05). RDA analysis indicated that environmental factors did not significant

ly affect fish communities monitored by the eDNA method. However

water temperature

aquatic plants

and water depth had significant (

0.05) effects on fish communities in the traditional capture method

suggesting that eDNA results are insensitive to the effects of environmental factors. Our results illustrate the effectiveness of eDNA in fish identification and the issues in quantification compared to traditional capture methods. Therefore

combining eDNA with traditional methods is a more effective method for analyzing eDNA metabarcoding

following which the protocols of both quantitative methods can be designed to explore the regularity of eDNA quantification.

关键词

Keywords

references

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