Ecological influence of sediment bypass tunnels on macroinvertebrates in dam-fragmented rivers by DNA metabarcoding

Macroinvertebrate Taxonomic and Functional Trait Compositions within Lotic Habitats Affected By River Restoration Practices

(2017) J. C. White et al.   ENVIRONMENTAL MANAGEMENT

Vertical movements through subsurface stream sediments by benthic macroinvertebrates during experimental drying are influenced by sediment characteristics and species traits

(2017) Atish N. Vadher et al.   FRESHWATER BIOLOGY

Stream power as a predictor of aquatic macroinvertebrate assemblages in the Yarlung Tsangpo River Basin (Tibetan Plateau)

(2017) Xiongdong Zhou et al.   HYDROBIOLOGIA

Ecological Assessment of a Sediment By-pass Tunnel on a Receiving Stream in Switzerland

(2017) E. J. Martín et al.   RIVER RESEARCH AND APPLICATIONS

Effects of flow regime on benthic algae and macroinvertebrates - A comparison between regulated and unregulated rivers

(2017) Susanne C. Schneider et al.   SCIENCE OF THE TOTAL ENVIRONMENT

A Bigger Toolbox: Biotechnology in Biodiversity Conservation

(2017) Richard T Corlett   TRENDS IN BIOTECHNOLOGY

Random sampling causes the low reproducibility of rare eukaryotic OTUs in Illumina COI metabarcoding

(2017) Matthieu Leray et al.   PeerJ

DNA metabarcoding and morphological macroinvertebrate metrics reveal the same changes in boreal watersheds across an environmental gradient

(2017) Caroline E. Emilson et al.   Scientific Reports

Metabarcoding reveals strong spatial structure and temporal turnover of zooplankton communities among marine and freshwater ports

(2016) Frédéric J. J. Chain et al.   DIVERSITY AND DISTRIBUTIONS

Functional diversity: a review of methodology and current knowledge in freshwater macroinvertebrate research

(2016) Dénes Schmera et al.   HYDROBIOLOGIA

Controlled sediment flushing at the Cancano Reservoir (Italian Alps): Management of the operation and downstream environmental impact

(2016) Paolo Espa et al.   JOURNAL OF ENVIRONMENTAL MANAGEMENT

Metabarcoding of marine zooplankton: prospects, progress and pitfalls

(2016) Ann Bucklin et al.   JOURNAL OF PLANKTON RESEARCH

How to limit false positives in environmental DNA and metabarcoding?

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

The utility of DNA metabarcoding for studying the response of arthropod diversity and composition to land-use change in the tropics

(2016) Kingsly Chuo Beng et al.   Scientific Reports

DNA metabarcoding of insects and allies: an evaluation of primers and pipelines

(2015) G.-J. Brandon-Mong et al.   BULLETIN OF ENTOMOLOGICAL RESEARCH

The ecology of environmental DNA and implications for conservation genetics

(2015) Matthew A. Barnes et al.   CONSERVATION GENETICS

Bioinformatic Amplicon Read Processing Strategies Strongly Affect Eukaryotic Diversity and the Taxonomic Composition of Communities

(2015) Markus Majaneva et al.   PLoS One

Can DNA-Based Ecosystem Assessments Quantify Species Abundance? Testing Primer Bias and Biomass—Sequence Relationships with an Innovative Metabarcoding Protocol

(2015) Vasco Elbrecht et al.   PLoS One

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Integrating molecular tools into freshwater ecology: developments and opportunities

(2014) Steffen U. Pauls et al.   FRESHWATER BIOLOGY

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

Replication levels, false presences and the estimation of the presence/absence from eDNA metabarcoding data

(2014) Gentile F. Ficetola et al.   Molecular Ecology Resources

Fifty thousand years of Arctic vegetation and megafaunal diet

(2014) Eske Willerslev et al.   NATURE

Is DNA Barcoding Actually Cheaper and Faster than Traditional Morphological Methods: Results from a Survey of Freshwater Bioassessment Efforts in the United States?

(2014) Eric D. Stein et al.   PLoS One

From barcoding single individuals to metabarcoding biological communities: towards an integrative approach to the study of global biodiversity

(2014) Melania E. Cristescu   TRENDS IN ECOLOGY & EVOLUTION

Reproducibility of pyrosequencing data for biodiversity assessment in complex communities

(2014) Aibin Zhan et al.   Methods in Ecology and Evolution

Habitat loss drives threshold response of benthic invertebrate communities to deposited sediment in agricultural streams

(2013) Francis J. Burdon et al.   ECOLOGICAL APPLICATIONS

Reliable, verifiable and efficient monitoring of biodiversity via metabarcoding

(2013) Yinqiu Ji et al.   ECOLOGY LETTERS

UPARSE: highly accurate OTU sequences from microbial amplicon reads

(2013) Robert C Edgar   NATURE METHODS

Impacts of large dams on downstream fluvial sedimentation: An example of the Three Gorges Dam (TGD) on the Changjiang (Yangtze River)

(2012) Zhijun Dai et al.   JOURNAL OF HYDROLOGY

Biomonitoring 2.0: a new paradigm in ecosystem assessment made possible by next-generation DNA sequencing

(2012) DONALD J. BAIRD et al.   MOLECULAR ECOLOGY

Biodiversity soup: metabarcoding of arthropods for rapid biodiversity assessment and biomonitoring

(2012) Douglas W. Yu et al.   Methods in Ecology and Evolution

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

(2011) Mehrdad Hajibabaei et al.   PLoS One

THE IMPACT OF FINE SEDIMENT ON MACRO-INVERTEBRATES

(2011) J. I. Jones et al.   RIVER RESEARCH AND APPLICATIONS

Dispersal ability determines the genetic effects of habitat fragmentation in three species of aquatic insect

(2010) Kozo Watanabe et al.   AQUATIC CONSERVATION-MARINE AND FRESHWATER ECOSYSTEMS

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Impact of reservoirs and channelization on lowland river macroinvertebrates: A case study from Central Europe

(2008) Michal Horsák et al.   LIMNOLOGICA