Counting with DNA in metabarcoding studies: How should we convert sequence reads to dietary data?

BE Deagle, AC Thomas, JC McInnes… - Molecular …, 2019 - Wiley Online Library
Advances in DNA sequencing technology have revolutionized the field of molecular analysis
of trophic interactions, and it is now possible to recover counts of food DNA sequences from …

The precautionary principle and dietary DNA metabarcoding: commonly used abundance thresholds change ecological interpretation

BL Littleford‐Colquhoun, PT Freeman, VI Sackett… - 2022 - Wiley Online Library
Dietary DNA metabarcoding enables researchers to identify and characterize trophic
interactions with a high degree of taxonomic precision. It is also sensitive to sources of bias …

Promises and pitfalls of using high‐throughput sequencing for diet analysis

A Alberdi, O Aizpurua, K Bohmann… - Molecular ecology …, 2019 - Wiley Online Library
The application of high‐throughput sequencing‐based approaches to DNA extracted from
environmental samples such as gut contents and faeces has become a popular tool for …

How much is enough? Effects of technical and biological replication on metabarcoding dietary analysis

VA Mata, H Rebelo, F Amorim… - Molecular …, 2019 - Wiley Online Library
DNA metabarcoding is increasingly used in dietary studies to estimate diversity, composition
and frequency of occurrence of prey items. However, few studies have assessed how …

DNA metabarcoding multiplexing and validation of data accuracy for diet assessment: application to omnivorous diet

M De Barba, C Miquel, F Boyer… - Molecular ecology …, 2014 - Wiley Online Library
Ecological understanding of the role of consumer–resource interactions in natural food webs
is limited by the difficulty of accurately and efficiently determining the complex variety of food …

The problem of omnivory: A synthesis on omnivory and DNA metabarcoding

MPTG Tercel, WOC Symondson, JP Cuff - 2021 - Wiley Online Library
Dietary analysis using DNA metabarcoding is a powerful tool that is increasingly being used
to further our knowledge of trophic interactions in highly complex food webs but is not …

Who is eating what: diet assessment using next generation sequencing

F Pompanon, BE Deagle, WOC Symondson… - Molecular …, 2012 - Wiley Online Library
The analysis of food webs and their dynamics facilitates understanding of the mechanistic
processes behind community ecology and ecosystem functions. Having accurate techniques …

DNA metabarcoding in diet studies: Unveiling ecological aspects in aquatic and terrestrial ecosystems

LL de Sousa, SM Silva, R Xavier - Environmental DNA, 2019 - Wiley Online Library
Effective conservation of species and ecosystems requires the understanding of important
ecological traits, such as dietary habits, food webs, and trophic niches. In diet studies, the …

How quantitative is metabarcoding: A meta‐analytical approach

PD Lamb, E Hunter, JK Pinnegar, S Creer… - Molecular …, 2019 - Wiley Online Library
Metabarcoding has been used in a range of ecological applications such as taxonomic
assignment, dietary analysis and the analysis of environmental DNA. However, after a …

A total crapshoot? Evaluating bioinformatic decisions in animal diet metabarcoding analyses

DR O'Rourke, NA Bokulich, MA Jusino… - Ecology and …, 2020 - Wiley Online Library
Metabarcoding studies provide a powerful approach to estimate the diversity and
abundance of organisms in mixed communities in nature. While strategies exist for …