Comparing Quantitative Methods for Analyzing Sediment DNA Records of Cyanobacteria in Experimental and Reference Lakes

The Influences of Bioinformatics Tools and Reference Databases in Analyzing the Human Oral Microbial Community

(2020) Maria A. Sierra et al.   Genes

Changes in Sedimentary Phosphorus Burial Following Artificial Eutrophication of Lake 227, Experimental Lakes Area, Ontario, Canada

(2020) D. W. O'Connell et al.   Journal of Geophysical Research-Biogeosciences

The Ultimate qPCR Experiment: Producing Publication Quality, Reproducible Data the First Time

(2019) Sean C. Taylor et al.   TRENDS IN BIOTECHNOLOGY

Performance of Microbiome Sequence Inference Methods in Environments with Varying Biomass

(2019) Vincent Caruso et al.   mSystems

Contrasting histories of microcystin-producing cyanobacteria in two temperate lakes as inferred from quantitative sediment DNA analyses

(2019) Shinjini Pilon et al.   LAKE AND RESERVOIR MANAGEMENT

A comparison of droplet digital polymerase chain reaction ( PCR ), quantitative PCR and metabarcoding for species‐specific detection in environmental DNA

(2019) Susanna A Wood et al.   Molecular Ecology Resources

Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2

(2019) Evan Bolyen et al.   NATURE BIOTECHNOLOGY

Long-term directional trajectories among lake crustacean zooplankton communities and water chemistry

(2018) Karl A. Lamothe et al.   CANADIAN JOURNAL OF FISHERIES AND AQUATIC SCIENCES

Combining High-Throughput Sequencing of sedaDNA and Traditional Paleolimnological Techniques To Infer Historical Trends in Cyanobacterial Communities

(2018) Timothy J. Tse et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Quantitative real-time polymerase chain reaction (PCR) and droplet digital PCR duplex assays for detecting Zostera marina DNA in coastal sediments

(2018) Masami Hamaguchi et al.   LIMNOLOGY AND OCEANOGRAPHY-METHODS

Needle in a haystack? A comparison of eDNA metabarcoding and targeted qPCR for detection of the great crested newt (Triturus cristatus )

(2018) Lynsey R. Harper et al.   Ecology and Evolution

Influence of commercial DNA extraction kit choice on prokaryotic community metrics in marine sediment

(2018) Gustavo A. Ramírez et al.   LIMNOLOGY AND OCEANOGRAPHY-METHODS

How quantitative is metabarcoding: A meta‐analytical approach

(2018) Philip D. Lamb et al.   MOLECULAR ECOLOGY

Can we detect ecosystem critical transitions and signals of changing resilience from paleo-ecological records?

(2018) Zofia E. Taranu et al.   Ecosphere

DNA-based methods in paleolimnology: new opportunities for investigating long-term dynamics of lacustrine biodiversity

(2017) Isabelle Domaizon et al.   JOURNAL OF PALEOLIMNOLOGY

Comparison of droplet digital PCR and quantitative PCR for the detection of Salmonella and its application for river sediments

(2017) Gulshan Singh et al.   JOURNAL OF WATER AND HEALTH

Ancient plant DNA in lake sediments

(2017) Laura Parducci et al.   NEW PHYTOLOGIST

Benthic Archives Reveal Recurrence and Dominance of Toxigenic Cyanobacteria in a Eutrophic Lake over the Last 220 Years

(2017) Benjamin Legrand et al.   Toxins

Homogenization of lake cyanobacterial communities over a century of climate change and eutrophication

(2017) Marie-Eve Monchamp et al.   Nature Ecology & Evolution

Droplet Digital PCR versus qPCR for gene expression analysis with low abundant targets: from variable nonsense to publication quality data

(2017) Sean C. Taylor et al.   Scientific Reports

Sedimentary DNA Reveals Cyanobacterial Community Diversity over 200 Years in Two Perialpine Lakes

(2016) Marie-Eve Monchamp et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

A framework for inferring biological communities from environmental DNA

(2016) Andrew Olaf Shelton et al.   ECOLOGICAL APPLICATIONS

A review of the global ecology, genomics, and biogeography of the toxic cyanobacterium, Microcystis spp.

(2016) Matthew J. Harke et al.   HARMFUL ALGAE

Environmental DNA metabarcoding of lake fish communities reflects long-term data from established survey methods

(2016) Bernd Hänfling et al.   MOLECULAR ECOLOGY

Environmental DNA – An emerging tool in conservation for monitoring past and present biodiversity

(2015) Philip Francis Thomsen et al.   BIOLOGICAL CONSERVATION

Microbial DNA records historical delivery of anthropogenic mercury

(2015) Alexandre J Poulain et al.   ISME Journal

Temporal trends in cyanobacteria revealed through DNA and pigment analyses of temperate lake sediment cores

(2015) S. Pal et al.   JOURNAL OF PALEOLIMNOLOGY

Quantifying Environmental DNA Signals for Aquatic Invasive Species Across Multiple Detection Platforms

(2014) Lucas M. Nathan et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Evidence for microbially mediated production of elemental mercury (Hg0) in subarctic lake sediments

(2013) Michelle L. Brazeau et al.   APPLIED GEOCHEMISTRY

Inhibition of DNA Polymerases Used in Q-PCR by Structurally Different Soil-Derived Humic Substances

(2013) Christian Nyrop Albers et al.   GEOMICROBIOLOGY JOURNAL

An improved method compatible with metagenomic analyses to extract genomic DNA from soils inTuber melanosporumorchards

(2013) S. Antony-Babu et al.   JOURNAL OF APPLIED MICROBIOLOGY

Gene copy number variation and its significance in cyanobacterial phylogeny

(2012) Bettina E Schirrmeister et al.   BMC MICROBIOLOGY

Groundtruthing Next-Gen Sequencing for Microbial Ecology–Biases and Errors in Community Structure Estimates from PCR Amplicon Pyrosequencing

(2012) Charles K. Lee et al.   PLoS One

High-Throughput Droplet Digital PCR System for Absolute Quantitation of DNA Copy Number

(2011) Benjamin J. Hindson et al.   ANALYTICAL CHEMISTRY

Quantitative PCR Enumeration of Total/Toxic Planktothrix rubescens and Total Cyanobacteria in Preserved DNA Isolated from Lake Sediments

(2011) Olga Savichtcheva et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Comment: Lake 227 shows clearly that controlling inputs of nitrogen will not reduce or prevent eutrophication of lakes

(2011) M. J. Paterson et al.   LIMNOLOGY AND OCEANOGRAPHY

Negative Effects of Sample Pooling on PCR-Based Estimates of Soil Microbial Richness and Community Structure

(2010) D. K. Manter et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Effect of PCR amplicon size on assessments of clone library microbial diversity and community structure

(2009) Julie A. Huber et al.   ENVIRONMENTAL MICROBIOLOGY

Polymerase chain reaction primers miss half of rRNA microbial diversity

(2009) SunHee Hong et al.   ISME Journal

Eutrophication of lakes cannot be controlled by reducing nitrogen input: Results of a 37-year whole-ecosystem experiment

(2008) D. W. Schindler et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA