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

Accurate multiplexing and filtering for high-throughput amplicon-sequencing

(2015) Philippe Esling et al.   NUCLEIC ACIDS RESEARCH

Forestry impacts on the hidden fungal biodiversity associated with bryophytes

(2014) Marie L. Davey et al.   FEMS MICROBIOLOGY ECOLOGY

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

Regional effects on chimera formation in 454 pyrosequenced amplicons from a mock community

(2014) Sunguk Shin et al.   JOURNAL OF MICROBIOLOGY

Protocols for metagenomic DNA extraction and Illumina amplicon library preparation for faecal and swab samples

(2014) A.-T. E. Vo et al.   Molecular Ecology Resources

Environmental monitoring using next generation sequencing: rapid identification of macroinvertebrate bioindicator species

(2013) Melissa E Carew et al.   Frontiers in Zoology

Host- and tissue-specificity of moss-associated Galerina and Mycena determined from amplicon pyrosequencing data

(2013) Marie L. Davey et al.   Fungal Ecology

Arctic root-associated fungal community composition reflects environmental filtering

(2013) Rakel Blaalid et al.   MOLECULAR ECOLOGY

Low host specificity of root-associated fungi at an Arctic site

(2013) Synnøve Botnen et al.   MOLECULAR ECOLOGY

ITS1 versus ITS2 as DNA metabarcodes for fungi

(2013) R. Blaalid et al.   Molecular Ecology Resources

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

(2013) M. De Barba et al.   Molecular Ecology Resources

A pragmatic approach to the analysis of diets of generalist predators: the use of next-generation sequencing with no blocking probes

(2013) J. Piñol et al.   Molecular Ecology Resources

A DNA Metabarcoding Study of a Primate Dietary Diversity and Plasticity across Its Entire Fragmented Range

(2013) Erwan Quéméré et al.   PLoS One

Scrapheap Challenge: A novel bulk-bone metabarcoding method to investigate ancient DNA in faunal assemblages

(2013) Dáithí C. Murray et al.   Scientific Reports

Employing 454 amplicon pyrosequencing to reveal intragenomic divergence in the internal transcribed spacer rDNA region in fungi

(2013) Daniel L. Lindner et al.   Ecology and Evolution

Don't make a mista(g)ke: is tag switching an overlooked source of error in amplicon pyrosequencing studies?

(2012) Tor Carlsen et al.   Fungal Ecology

Bioinformatic challenges for DNA metabarcoding of plants and animals

(2012) ERIC COISSAC et al.   MOLECULAR ECOLOGY

Environmental DNA

(2012) PIERRE TABERLET et al.   MOLECULAR ECOLOGY

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

Removing Noise From Pyrosequenced Amplicons

(2011) Christopher Quince et al.   BMC BIOINFORMATICS

Who is eating what: diet assessment using next generation sequencing

(2011) FRANCOIS POMPANON et al.   MOLECULAR ECOLOGY

Two decades of describing the unseen majority of aquatic microbial diversity

(2011) LUCIE ZINGER et al.   MOLECULAR ECOLOGY

Double indexing overcomes inaccuracies in multiplex sequencing on the Illumina platform

(2011) Martin Kircher et al.   NUCLEIC ACIDS RESEARCH

Large Scale Loss of Data in Low-Diversity Illumina Sequencing Libraries Can Be Recovered by Deferred Cluster Calling

(2011) Felix Krueger 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

“Sight-unseen” detection of rare aquatic species using environmental DNA

(2011) Christopher L. Jerde et al.   Conservation Letters

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Ecological assessment of estuarine sediments by pyrosequencing eukaryotic ribosomal DNA

(2010) Anthony A Chariton et al.   FRONTIERS IN ECOLOGY AND THE ENVIRONMENT

Reducing chimera formation during PCR amplification to ensure accurate genotyping

(2010) R.P. Smyth et al.   GENE

Using next-generation sequencing for molecular reconstruction of past Arctic vegetation and climate

(2010) J. H. SØNSTEBØ et al.   Molecular Ecology Resources

Taxon-specific PCR for DNA barcoding arthropod prey in bat faeces

(2010) MATT R. K. ZEALE et al.   Molecular Ecology Resources

The MIQE Guidelines: Minimum Information for Publication of Quantitative Real-Time PCR Experiments

(2009) S. A. Bustin et al.   CLINICAL CHEMISTRY

Analysing diet of small herbivores: the efficiency of DNA barcoding coupled with high-throughput pyrosequencing for deciphering the composition of complex plant mixtures

(2009) Eeva M Soininen et al.   Frontiers in Zoology

Universal DNA-Based Methods for Assessing the Diet of Grazing Livestock and Wildlife from Feces

(2009) Anthony Pegard et al.   JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY

Analysis of Australian fur seal diet by pyrosequencing prey DNA in faeces

(2009) BRUCE E. DEAGLE et al.   MOLECULAR ECOLOGY

New perspectives in diet analysis based on DNA barcoding and parallel pyrosequencing: thetrnL approach

(2009) ALICE VALENTINI et al.   Molecular Ecology Resources

Amplification-free Illumina sequencing-library preparation facilitates improved mapping and assembly of (G+C)-biased genomes

(2009) Iwanka Kozarewa et al.   NATURE METHODS

Ancient DNA reveals late survival of mammoth and horse in interior Alaska

(2009) James Haile et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Response to Comment by Goldberg et al. on "DNA from Pre-Clovis Human Coprolites in Oregon, North America"

(2009) M. Rasmussen et al.   SCIENCE

Species detection using environmental DNA from water samples

(2008) G. F. Ficetola et al.   Biology Letters

Pseudogenes and DNA-based diet analyses: a cautionary tale from a relatively well sampled predator-prey system

(2008) G. Dunshea et al.   BULLETIN OF ENTOMOLOGICAL RESEARCH

Enzymes used in molecular biology: a useful guide

(2008) Laure Rittié et al.   Journal of Cell Communication and Signaling