Establishing arthropod community composition using metabarcoding : Surprising inconsistencies between soil samples and preservative ethanol and homogenate from Malaise trap catches

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Marquina , D , Esparza-Salas , R , Roslin , T & Ronquist , F 2019 , ' Establishing arthropod community composition using metabarcoding : Surprising inconsistencies between soil samples and preservative ethanol and homogenate from Malaise trap catches ' , Molecular Ecology Resources , vol. 19 , no. 6 , pp. 1516-1530 . https://doi.org/10.1111/1755-0998.13071

Title: Establishing arthropod community composition using metabarcoding : Surprising inconsistencies between soil samples and preservative ethanol and homogenate from Malaise trap catches
Author: Marquina, Daniel; Esparza-Salas, Rodrigo; Roslin, Tomas; Ronquist, Fredrik
Contributor: University of Helsinki, Spatial Foodweb Ecology Group
Date: 2019-11
Language: eng
Number of pages: 15
Belongs to series: Molecular Ecology Resources
ISSN: 1755-098X
URI: http://hdl.handle.net/10138/310134
Abstract: DNA metabarcoding allows the analysis of insect communities faster and more efficiently than ever before. However, metabarcoding can be conducted through several approaches, and the consistency of results across methods has rarely been studied. We compare the results obtained by DNA metabarcoding of the same communities using two different markers - COI and 16S - and three different sampling methods: (a) homogenized Malaise trap samples (homogenate), (b) preservative ethanol from the same samples, and (c) soil samples. Our results indicate that COI and 16S offer partly complementary information on Malaise trap samples, with each marker detecting a significant number of species not detected by the other. Different sampling methods offer highly divergent estimates of community composition. The community recovered from preservative ethanol of Malaise trap samples is significantly different from that recovered from homogenate. Small and weakly sclerotized insects tend to be overrepresented in ethanol while strong and large taxa are overrepresented in homogenate. For soil samples, highly degenerate COI primers pick up large amounts of nontarget DNA and only 16S provides adequate analyses of insect diversity. However, even with 16S, very little overlap in molecular operational taxonomic unit (MOTU) content was found between the trap and the soil samples. Our results demonstrate that none of the tested sampling approaches is satisfactory on its own. For instance, DNA extraction from preservative ethanol is not a valid replacement for destructive bulk extraction but a complement. In future metabarcoding studies, both should ideally be used together to achieve comprehensive representation of the target community.
Subject: 1181 Ecology, evolutionary biology
environmental DNA
insects
Malaise traps
metabarcoding
nondestructive extraction
preservative ethanol
ENVIRONMENTAL DNA
BIODIVERSITY
PCR
IDENTIFICATION
REVEALS
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