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

Molecular Ecology Resources
Daniel MarquinaFredrik Ronquist

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, ...Continue Reading

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Citations

Feb 6, 2020·Biodiversity Data Journal·Dave KarlssonFredrik Ronquist
May 5, 2021·Molecular Ecology Resources·Stephanie D JurburgJonathan M Chase
Sep 9, 2021·Molecular Ecology Resources·Thomas J CreedyPaula Arribas

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Methods Mentioned

BETA
PCR

Software Mentioned

obitools
ggplot2
R
ecotag
SAS
SWARM
FastQC
MiSeq
vegan

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