Assessment of the metabarcoding approach for community analysis of benthic-epiphytic dinoflagellates using mock communities
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Title
Assessment of the metabarcoding approach for community analysis of benthic-epiphytic dinoflagellates using mock communities
Authors
Keywords
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Journal
NEW ZEALAND JOURNAL OF MARINE AND FRESHWATER RESEARCH
Volume 51, Issue 4, Pages 555-576
Publisher
Informa UK Limited
Online
2017-03-16
DOI
10.1080/00288330.2017.1298632
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Note: Only part of the references are listed.- Protist metabarcoding and environmental biomonitoring: Time for change
- (2016) J. Pawlowski et al. EUROPEAN JOURNAL OF PROTISTOLOGY
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- (2016) Pamela M. Brannock et al. MOLECULAR ECOLOGY
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- (2016) Jun-Tao Wang et al. Scientific Reports
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- (2015) Ramon Massana et al. ENVIRONMENTAL MICROBIOLOGY
- Global patterns of pelagic dinoflagellate diversity across protist size classes unveiled by metabarcoding
- (2015) Noan Le Bescot et al. ENVIRONMENTAL MICROBIOLOGY
- Environmental Monitoring: Inferring the Diatom Index from Next-Generation Sequencing Data
- (2015) Joana Amorim Visco et al. ENVIRONMENTAL SCIENCE & TECHNOLOGY
- Evolution of the MIDTAL microarray: the adaption and testing of oligonucleotide 18S and 28S rDNA probes and evaluation of subsequent microarray generations with Prymnesium spp. cultures and field samples
- (2015) Gary R. McCoy et al. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH
- Scraping the bottom of the barrel: are rare high throughput sequences artifacts?
- (2015) Shawn P. Brown et al. Fungal Ecology
- Global diversity and biogeography of deep-sea pelagic prokaryotes
- (2015) Guillem Salazar et al. ISME Journal
- Accurate assessment of the impact of salmon farming on benthic sediment enrichment using foraminiferal metabarcoding
- (2015) X. Pochon et al. MARINE POLLUTION BULLETIN
- Metabarcoding approach for the ballast water surveillance – An advantageous solution or an awkward challenge?
- (2015) Anastasija Zaiko et al. MARINE POLLUTION BULLETIN
- Not all are free-living: high-throughput DNA metabarcoding reveals a diverse community of protists parasitizing soil metazoa
- (2015) S. Geisen et al. MOLECULAR ECOLOGY
- Targeted gene enrichment and high-throughput sequencing for environmental biomonitoring: a case study using freshwater macroinvertebrates
- (2015) Eddy J. Dowle et al. Molecular Ecology Resources
- Accurate multiplexing and filtering for high-throughput amplicon-sequencing
- (2015) Philippe Esling et al. NUCLEIC ACIDS RESEARCH
- Eukaryotic plankton diversity in the sunlit ocean
- (2015) C. de Vargas et al. SCIENCE
- Divergence thresholds and divergent biodiversity estimates: can metabarcoding reliably describe zooplankton communities?
- (2015) Emily A. Brown et al. Ecology and Evolution
- Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi
- (2015) Leho Tedersoo et al. MycoKeys
- 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
- Rare biosphere exploration using high-throughput sequencing: research progress and perspectives
- (2014) Aibin Zhan et al. CONSERVATION GENETICS
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- (2014) Patricia A. Tester et al. HARMFUL ALGAE
- Epiphytic dinoflagellates in sub-tropical New Zealand, in particular the genus Coolia Meunier
- (2014) Lesley Rhodes et al. HARMFUL ALGAE
- High abundance of the potentially maitotoxic dinoflagellate Gambierdiscus carpenteri in temperate waters of New South Wales, Australia
- (2014) Gurjeet S. Kohli et al. HARMFUL ALGAE
- Environmental metabarcoding reveals heterogeneous drivers of microbial eukaryote diversity in contrasting estuarine ecosystems
- (2014) Delphine Lallias et al. ISME Journal
- Deep-branching Novel Lineages and High Diversity of Haptophytes in the Skagerrak (Norway) Uncovered by 454 Pyrosequencing
- (2014) Elianne S. Egge et al. JOURNAL OF EUKARYOTIC MICROBIOLOGY
- Rapid and Accurate Identification by Real-Time PCR of Biotoxin-Producing Dinoflagellates from the Family Gymnodiniaceae
- (2014) Kirsty Smith et al. Marine Drugs
- Environmental monitoring through protist next-generation sequencing metabarcoding: assessing the impact of fish farming on benthic foraminifera communities
- (2014) Jan Pawlowski et al. Molecular Ecology Resources
- Parsing ecological signal from noise in next generation amplicon sequencing
- (2014) Nhu H. Nguyen et al. NEW PHYTOLOGIST
- Gambierdiscuscf.yasumotoi(Dinophyceae) isolated from New Zealand's sub-tropical northern coastal waters
- (2014) L Rhodes et al. NEW ZEALAND JOURNAL OF MARINE AND FRESHWATER RESEARCH
- Strengths and Limitations of 16S rRNA Gene Amplicon Sequencing in Revealing Temporal Microbial Community Dynamics
- (2014) Rachel Poretsky et al. PLoS One
- Harnessing DNA to improve environmental management
- (2014) R. P. Kelly et al. SCIENCE
- 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
- Harmful Algae in Benthic Systems: A GEOHAB Core Research Program
- (2013) Adriana Zingonea et al. CRYPTOGAMIE ALGOLOGIE
- Reliable, verifiable and efficient monitoring of biodiversity via metabarcoding
- (2013) Yinqiu Ji et al. ECOLOGY LETTERS
- Cobgene pyrosequencing enables characterization of benthic dinoflagellate diversity and biogeography
- (2013) Gurjeet S. Kohli et al. ENVIRONMENTAL MICROBIOLOGY
- Molecular diversity of phytoplankton in the East China Sea around Jeju Island (Korea), unraveled by pyrosequencing
- (2013) Daphne Georgina Faria et al. JOURNAL OF OCEANOGRAPHY
- Next-generation sequencing to inventory taxonomic diversity in eukaryotic communities: a test for freshwater diatoms
- (2013) L. Kermarrec et al. Molecular Ecology Resources
- Fungal community analysis by high-throughput sequencing of amplified markers - a user's guide
- (2013) Björn D. Lindahl et al. NEW PHYTOLOGIST
- Molecular genetic tools for environmental monitoring of New Zealand's aquatic habitats, past, present and the future
- (2013) SA Wood et al. NEW ZEALAND JOURNAL OF MARINE AND FRESHWATER RESEARCH
- Quantitative PCR Method for Enumeration of Cells of Cryptic Species of the Toxic Marine Dinoflagellate Ostreopsis spp. in Coastal Waters of Japan
- (2013) Naohito Hariganeya et al. PLoS One
- Can Abundance of Protists Be Inferred from Sequence Data: A Case Study of Foraminifera
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- (2013) Xin Zhou et al. GigaScience
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- (2012) Mark W. Vandersea et al. JOURNAL OF PHYCOLOGY
- Towards next-generation biodiversity assessment using DNA metabarcoding
- (2012) PIERRE TABERLET et al. MOLECULAR ECOLOGY
- The simple fool's guide to population genomics via RNA-Seq: an introduction to high-throughput sequencing data analysis
- (2012) Pierre De Wit et al. Molecular Ecology Resources
- Quality-filtering vastly improves diversity estimates from Illumina amplicon sequencing
- (2012) Nicholas A Bokulich et al. NATURE METHODS
- The Protist Ribosomal Reference database (PR2): a catalog of unicellular eukaryote Small Sub-Unit rRNA sequences with curated taxonomy
- (2012) Laure Guillou et al. NUCLEIC ACIDS RESEARCH
- The SILVA ribosomal RNA gene database project: improved data processing and web-based tools
- (2012) Christian Quast et al. NUCLEIC ACIDS RESEARCH
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- (2011) Shauna A. Murray et al. APPLIED AND ENVIRONMENTAL MICROBIOLOGY
- UCHIME improves sensitivity and speed of chimera detection
- (2011) Robert C. Edgar et al. BIOINFORMATICS
- Gambierdiscus and Ostreopsis: Reassessment of the state of knowledge of their taxonomy, geography, ecophysiology, and toxicology
- (2011) Michael L. Parsons et al. HARMFUL ALGAE
- Reproducibility and quantitation of amplicon sequencing-based detection
- (2011) Jizhong Zhou et al. ISME Journal
- Metagenetic community analysis of microbial eukaryotes illuminates biogeographic patterns in deep-sea and shallow water sediments
- (2011) HOLLY M. BIK et al. MOLECULAR ECOLOGY
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- (2011) Lucie Zinger et al. PLoS One
- The Pace of Shifting Climate in Marine and Terrestrial Ecosystems
- (2011) M. T. Burrows et al. SCIENCE
- SolexaQA: At-a-glance quality assessment of Illumina second-generation sequencing data
- (2010) Murray P Cox et al. BMC BIOINFORMATICS
- A phylogeographical study of the toxic benthic dinoflagellate genusOstreopsisSchmidt
- (2010) Antonella Penna et al. JOURNAL OF BIOGEOGRAPHY
- OCEAN CLIMATE CHANGE, PHYTOPLANKTON COMMUNITY RESPONSES, AND HARMFUL ALGAL BLOOMS: A FORMIDABLE PREDICTIVE CHALLENGE
- (2010) Gustaaf M. Hallegraeff JOURNAL OF PHYCOLOGY
- Multiple marker parallel tag environmental DNA sequencing reveals a highly complex eukaryotic community in marine anoxic water
- (2010) THORSTEN STOECK et al. MOLECULAR ECOLOGY
- Environmental Barcoding Reveals Massive Dinoflagellate Diversity in Marine Environments
- (2010) Rowena F. Stern et al. PLoS One
- New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0
- (2010) Stéphane Guindon et al. SYSTEMATIC BIOLOGY
- Global distribution of ciguatera causing dinoflagellates in the genus Gambierdiscus
- (2010) R. Wayne Litaker et al. TOXICON
- World-wide occurrence of the toxic dinoflagellate genus Ostreopsis Schmidt
- (2010) Lesley Rhodes TOXICON
- 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
- Blooms of benthic dinoflagellates of the genus Ostreopsis; an increasing and ecologically important phenomenon on temperate reefs in New Zealand and worldwide
- (2009) Nick T. Shears et al. HARMFUL ALGAE
- Pyrosequencing reveals contrasting seasonal dynamics of taxa within Baltic Sea bacterioplankton communities
- (2009) Anders F Andersson et al. ISME Journal
- Taxonomy of Gambierdiscus including four new species, Gambierdiscus caribaeus, Gambierdiscus carolinianus, Gambierdiscus carpenteri and Gambierdiscus ruetzleri (Gonyaulacales, Dinophyceae)
- (2009) R. Wayne Litaker et al. PHYCOLOGIA
- 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
- High-Level Diversity of Dinoflagellates in the Natural Environment, Revealed by Assessment of Mitochondrial cox1 and cob Genes for Dinoflagellate DNA Barcoding
- (2008) S. Lin et al. APPLIED AND ENVIRONMENTAL MICROBIOLOGY
- Quantification of Diatom and Dinoflagellate Biomasses in Coastal Marine Seawater Samples by Real-Time PCR
- (2008) A. Godhe et al. APPLIED AND ENVIRONMENTAL MICROBIOLOGY
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