Optimal extraction methods for the simultaneous analysis of DNA from diverse organisms and sample types

Following Rapoport's Rule: the geographic range and genome size of bacterial taxa decline at warmer latitudes

(2017) Gavin Lear et al.   ENVIRONMENTAL MICROBIOLOGY

Evaluation of the reproducibility of amplicon sequencing with Illumina MiSeq platform

(2017) Chongqing Wen et al.   PLoS One

Global biogeography of marine fungi is shaped by the environment

(2016) Kaho H. Tisthammer et al.   Fungal Ecology

An Improved Method for High Quality Metagenomics DNA Extraction from Human and Environmental Samples

(2016) Satyabrata Bag et al.   Scientific Reports

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

(2015) Kristy Deiner et al.   BIOLOGICAL CONSERVATION

Continental-scale variation in seaweed host-associated bacterial communities is a function of host condition, not geography

(2015) Ezequiel M. Marzinelli et al.   ENVIRONMENTAL MICROBIOLOGY

MiFish, a set of universal PCR primers for metabarcoding environmental DNA from fishes: detection of more than 230 subtropical marine species

(2015) M. Miya et al.   Royal Society Open Science

UpSet: Visualization of Intersecting Sets

(2014) Alexander Lex et al.   IEEE TRANSACTIONS ON VISUALIZATION AND COMPUTER GRAPHICS

Distinct Bacterial Communities Dominate Tropical and Temperate Zone Leaf Litter

(2014) Mincheol Kim et al.   MICROBIAL ECOLOGY

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

Ancient and modern environmental DNA

(2014) Mikkel Winther Pedersen et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Human and Environmental Impacts on River Sediment Microbial Communities

(2014) Sean M. Gibbons et al.   PLoS One

DNA extraction protocols cause differences in 16S rRNA amplicon sequencing efficiency but not in community profile composition or structure

(2014) Benjamin E. R. Rubin et al.   MicrobiologyOpen

Detection of Asian carp DNA as part of a Great Lakes basin-wide surveillance program

(2013) Christopher L. Jerde et al.   CANADIAN JOURNAL OF FISHERIES AND AQUATIC SCIENCES

A new versatile primer set targeting a short fragment of the mitochondrial COI region for metabarcoding metazoan diversity: application for characterizing coral reef fish gut contents

(2013) Matthieu Leray et al.   Frontiers in Zoology

Species identification from archived snail shells via genetic analysis: a method for DNA extraction from empty shells

(2013) Karl B. Andree et al.   MOLLUSCAN RESEARCH

UPARSE: highly accurate OTU sequences from microbial amplicon reads

(2013) Robert C Edgar   NATURE METHODS

Unveiling Distribution Patterns of Freshwater Phytoplankton by a Next Generation Sequencing Based Approach

(2013) Alexander Eiler et al.   PLoS One

New primers to amplify the fungal ITS2 region - evaluation by 454-sequencing of artificial and natural communities

(2012) Katarina Ihrmark et al.   FEMS MICROBIOLOGY ECOLOGY

DNA from soil mirrors plant taxonomic and growth form diversity

(2012) N. G. YOCCOZ 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

Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies

(2012) Anna Klindworth et al.   NUCLEIC ACIDS RESEARCH

Evaluation of Methods for the Extraction and Purification of DNA from the Human Microbiome

(2012) Sanqing Yuan et al.   PLoS One

Reproducibility and quantitation of amplicon sequencing-based detection

(2011) Jizhong Zhou et al.   ISME Journal

An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea

(2011) Daniel McDonald et al.   ISME Journal

Meta-barcoding of ‘dirt’ DNA from soil reflects vertebrate biodiversity

(2011) KENNETH ANDERSEN et al.   MOLECULAR ECOLOGY

Monitoring endangered freshwater biodiversity using environmental DNA

(2011) PHILIP FRANCIS THOMSEN et al.   MOLECULAR ECOLOGY

Evidence of cellulose metabolism by the giant panda gut microbiome

(2011) L. Zhu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Effects of polymerase, template dilution and cycle number on PCR based 16 S rRNA diversity analysis using the deep sequencing method

(2010) Jin-Ya Wu et al.   BMC MICROBIOLOGY

Obtaining high-quality DNA from elusive small mammals using low-tech hair snares

(2010) Philippe Henry et al.   EUROPEAN JOURNAL OF WILDLIFE RESEARCH

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Validation of the ITS2 Region as a Novel DNA Barcode for Identifying Medicinal Plant Species

(2010) Shilin Chen et al.   PLoS One

Spatial and temporal heterogeneity of the bacterial communities in stream epilithic biofilms

(2008) Gavin Lear et al.   FEMS MICROBIOLOGY ECOLOGY