Metabarcoding for the parallel identification of several hundred predators and their prey: Application to bat species diet analysis

Geoffroy's bat, Myotis emarginatus, preys preferentially on spiders in multistratified dense habitats: a study of foraging bats in the Mediterranean

(2018) Urtzi Goiti et al.   FOLIA ZOOLOGICA

Comparison of diet and prey selectivity of the Pyrenean desman and the Eurasian water shrew using next-generation sequencing methods

(2017) Marjorie Biffi et al.   MAMMALIAN BIOLOGY

A from-benchtop-to-desktop workflow for validating HTS data and for taxonomic identification in diet metabarcoding studies

(2017) Emmanuel Corse et al.   Molecular Ecology Resources

Chirosurveillance: The use of native bats to detect invasive agricultural pests

(2017) Brooke Maslo et al.   PLoS One

A comprehensive benchmarking study of protocols and sequencing platforms for 16S rRNA community profiling

(2016) Rosalinda D’Amore et al.   BMC GENOMICS

Quality filtering of Illumina index reads mitigates sample cross-talk

(2016) Erik Scott Wright et al.   BMC GENOMICS

How to limit false positives in environmental DNA and metabarcoding?

(2016) Gentile Francesco Ficetola et al.   Molecular Ecology Resources

Critical considerations for the application of environmental DNA methods to detect aquatic species

(2016) Caren S. Goldberg et al.   Methods in Ecology and Evolution

Testing the potential of a ribosomal 16S marker for DNA metabarcoding of insects

(2016) Vasco Elbrecht et al.   PeerJ

16S rRNA Amplicon Sequencing for Epidemiological Surveys of Bacteria in Wildlife

(2016) Maxime Galan et al.   mSystems

Metabarcoding of Fecal Samples to Determine Herbivore Diets: A Case Study of the Endangered Pacific Pocket Mouse

(2016) Deborah D. Iwanowicz et al.   PLoS One

Choice of capture and extraction methods affect detection of freshwater biodiversity from environmental DNA

(2015) Kristy Deiner et al.   BIOLOGICAL CONSERVATION

Ghost mtDNA haplotypes generated by fortuitous NUMTs can deeply disturb infra-specific genetic diversity and phylogeographic pattern

(2015) Julien Haran et al.   JOURNAL OF ZOOLOGICAL SYSTEMATICS AND EVOLUTIONARY RESEARCH

A new method to identify the endangered Pyrenean desman ( Galemys pyrenaicus ) and to study its diet, using next generation sequencing from faeces

(2015) François Gillet et al.   MAMMALIAN BIOLOGY

obitools: aunix-inspired software package for DNA metabarcoding

(2015) Frédéric Boyer et al.   Molecular Ecology Resources

Tag jumps illuminated - reducing sequence-to-sample misidentifications in metabarcoding studies

(2015) Ida Baerholm Schnell et al.   Molecular Ecology Resources

Accurate multiplexing and filtering for high-throughput amplicon-sequencing

(2015) Philippe Esling et al.   NUCLEIC ACIDS RESEARCH

DNA metabarcoding and the cytochrome c oxidase subunit I marker: not a perfect match

(2014) B. E. Deagle et al.   Biology Letters

Second generation sequencing and morphological faecal analysis reveal unexpected foraging behaviour by Myotis nattereri (Chiroptera, Vespertilionidae) in winter

(2014) Paul R Hope et al.   Frontiers in Zoology

Universal and blocking primer mismatches limit the use of high-throughput DNA sequencing for the quantitative metabarcoding of arthropods

(2014) J. Piñol et al.   Molecular Ecology Resources

The room temperature preservation of filtered environmental DNA samples and assimilation into a phenol-chloroform-isoamyl alcohol DNA extraction

(2014) Mark A. Renshaw et al.   Molecular Ecology Resources

Environmental DNA for wildlife biology and biodiversity monitoring

(2014) Kristine Bohmann et al.   TRENDS IN ECOLOGY & EVOLUTION

An improved dual-indexing approach for multiplexed 16S rRNA gene sequencing on the Illumina MiSeq platform

(2014) Douglas W Fadrosh et al.   Microbiome

Development of a Dual-Index Sequencing Strategy and Curation Pipeline for Analyzing Amplicon Sequence Data on the MiSeq Illumina Sequencing Platform

(2013) James J. Kozich et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The role of replicates for error mitigation in next-generation sequencing

(2013) Kimberly Robasky et al.   NATURE REVIEWS GENETICS

Assessing DNA Barcoding as a Tool for Species Identification and Data Quality Control

(2013) Yong-Yi Shen et al.   PLoS One

A Universal Method for Species Identification of Mammals Utilizing Next Generation Sequencing for the Analysis of DNA Mixtures

(2013) Andreas O. Tillmar et al.   PLoS One

Next Generation Sequencing of Fecal DNA Reveals the Dietary Diversity of the Widespread Insectivorous Predator Daubenton’s Bat (Myotis daubentonii) in Southwestern Finland

(2013) Eero J. Vesterinen et al.   PLoS One

Tracking Diet Preferences of Bats Using Stable Isotope and Fatty Acid Signatures of Faeces

(2013) Monika My-Y Lam et al.   PLoS One

Prey Selection and Seasonal Diet Changes in the Western Barbastelle Bat (Barbastella barbastellus)

(2012) Michal Andreas et al.   ACTA CHIROPTEROLOGICA

Carnivore diet analysis based on next-generation sequencing: application to the leopard cat (Prionailurus bengalensis) in Pakistan

(2012) WASIM SHEHZAD et al.   MOLECULAR ECOLOGY

Towards next-generation biodiversity assessment using DNA metabarcoding

(2012) PIERRE TABERLET et al.   MOLECULAR ECOLOGY

UCHIME improves sensitivity and speed of chimera detection

(2011) Robert C. Edgar et al.   BIOINFORMATICS

Who is eating what: diet assessment using next generation sequencing

(2011) FRANCOIS POMPANON et al.   MOLECULAR ECOLOGY

Molecular scatology: how to improve prey DNA detection success in avian faeces?

(2011) JOHANNES OEHM et al.   Molecular Ecology Resources

Double indexing overcomes inaccuracies in multiplex sequencing on the Illumina platform

(2011) Martin Kircher et al.   NUCLEIC ACIDS RESEARCH

Environmental Barcoding: A Next-Generation Sequencing Approach for Biomonitoring Applications Using River Benthos

(2011) Mehrdad Hajibabaei et al.   PLoS One

Molecular Diet Analysis of Two African Free-Tailed Bats (Molossidae) Using High Throughput Sequencing

(2011) Kristine Bohmann et al.   PLoS One

High-throughput sequencing offers insight into mechanisms of resource partitioning in cryptic bat species

(2011) Orly Razgour et al.   Ecology and Evolution

An Efficient Multistrategy DNA Decontamination Procedure of PCR Reagents for Hypersensitive PCR Applications

(2010) Sophie Champlot et al.   PLoS One

Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

(2009) P. D. Schloss et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Quaternary history and contemporary patterns in a currently expanding species

(2009) Carole Kerdelhué et al.   BMC EVOLUTIONARY BIOLOGY