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

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(P<0.05).RDA analysis indicated that environmental factors did not significantly affect fish communities monitored by the eDNA method.However,water temperature,aquatic plants,and water depth had significant(P<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.