Sample Preservation, DNA or RNA Extraction and Data Analysis for High-Throughput Phytoplankton Community Sequencing

Single Cell Analysis Linking Ribosomal (r)DNA and rRNA Copy Numbers to Cell Size and Growth Rate Provides Insights into Molecular Protistan Ecology

(2017) Rao Fu et al.   JOURNAL OF EUKARYOTIC MICROBIOLOGY

Reference standards for next-generation sequencing

(2017) Simon A. Hardwick et al.   NATURE REVIEWS GENETICS

Design and Evaluation of Illumina MiSeq-Compatible, 18S rRNA Gene-Specific Primers for Improved Characterization of Mixed Phototrophic Communities

(2016) Ian M. Bradley et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

A practical method for barcoding and size-trimming PCR templates for amplicon sequencing

(2016) Anita Mäki et al.   BIOTECHNIQUES

Trimming of sequence reads alters RNA-Seq gene expression estimates

(2016) Claire R. Williams et al.   BMC BIOINFORMATICS

Is metabarcoding suitable for estuarine plankton monitoring? A comparative study with microscopy

(2016) David Abad et al.   MARINE BIOLOGY

Relic DNA is abundant in soil and obscures estimates of soil microbial diversity

(2016) Paul Carini et al.   Nature Microbiology

Techniques for Quantifying Phytoplankton Biodiversity

(2015) Zackary I. Johnson et al.   Annual Review of Marine Science

Regular build-up of the spring phytoplankton maximum before ice-break in a boreal lake

(2015) Pauliina Salmi et al.   LIMNOLOGY AND OCEANOGRAPHY

PhytoREF: a reference database of the plastidial 16S rRNA gene of photosynthetic eukaryotes with curated taxonomy

(2015) Johan Decelle et al.   Molecular Ecology Resources

An Improved DNA Extraction Method for Efficient and Quantitative Recovery of Phytoplankton Diversity in Natural Assemblages

(2015) Jian Yuan et al.   PLoS One

Eukaryotic plankton diversity in the sunlit ocean

(2015) C. de Vargas et al.   SCIENCE

Open science resources for the discovery and analysis of Tara Oceans data

(2015) Stéphane Pesant et al.   Scientific Data

Determining Microeukaryotic Plankton Community around Xiamen Island, Southeast China, Using Illumina MiSeq and PCR-DGGE Techniques

(2015) Lingyu Yu et al.   PLoS One

Investigating Microbial Eukaryotic Diversity from a Global Census: Insights from a Comparison of Pyrotag and Full-Length Sequences of 18S rRNA Genes

(2014) Alle A. Y. Lie et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Library preparation methods for next-generation sequencing: Tone down the bias

(2014) Erwin L. van Dijk et al.   EXPERIMENTAL CELL RESEARCH

Characterization of the 18S rRNA Gene for Designing Universal Eukaryote Specific Primers

(2014) Kenan Hadziavdic et al.   PLoS One

Optimal Eukaryotic 18S and Universal 16S/18S Ribosomal RNA Primers and Their Application in a Study of Symbiosis

(2014) Yong Wang et al.   PLoS One

Systematic Design of 18S rRNA Gene Primers for Determining Eukaryotic Diversity in Microbial Consortia

(2014) Luisa W. Hugerth et al.   PLoS One

On the optimal trimming of high-throughput mRNA sequence data

(2014) Matthew D. MacManes   Frontiers in Genetics

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

(2013) Kimberly Robasky et al.   NATURE REVIEWS GENETICS

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

(2013) Alexander Eiler et al.   PLoS One

Comparative Analysis of Eukaryotic Marine Microbial Assemblages from 18S rRNA Gene and Gene Transcript Clone Libraries by Using Different Methods of Extraction

(2012) Amy Koid et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Evaluation of DNA extraction methods for freshwater eukaryotic microalgae

(2012) Lucy E. Eland et al.   WATER RESEARCH

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

Polymerase chain reaction primers miss half of rRNA microbial diversity

(2009) SunHee Hong et al.   ISME Journal

A method for extracting a high-quality RNA from Symbiodinium sp.

(2009) Nedeljka N. Rosic et al.   JOURNAL OF APPLIED PHYCOLOGY

Evaluation of DNA extraction and handling procedures for PCR-based copepod feeding studies

(2009) Paolo Simonelli et al.   JOURNAL OF PLANKTON RESEARCH

A Method for Studying Protistan Diversity Using Massively Parallel Sequencing of V9 Hypervariable Regions of Small-Subunit Ribosomal RNA Genes

(2009) Linda A. Amaral-Zettler et al.   PLoS One

The Life History and Cell Cycle of Kryptoperidinium foliaceum, A Dinoflagellate with Two Eukaryotic Nuclei

(2009) Rosa Isabel Figueroa et al.   PROTIST

Quantification of Diatom and Dinoflagellate Biomasses in Coastal Marine Seawater Samples by Real-Time PCR

(2008) A. Godhe et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY