Boosting DNA metabarcoding for biomonitoring with phylogenetic estimation of operational taxonomic units’ ecological profiles

Predicting the Ecological Quality Status of Marine Environments from eDNA Metabarcoding Data Using Supervised Machine Learning

(2017) Tristan Cordier et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Freshwater biomonitoring in the Information Age

(2017) François Keck et al.   FRONTIERS IN ECOLOGY AND THE ENVIRONMENT

Taxonomy-free molecular diatom index for high-throughput eDNA biomonitoring

(2017) Laure Apothéloz-Perret-Gentil et al.   Molecular Ecology Resources

Application of high-throughput sequencing (HTS) metabarcoding to diatom biomonitoring: Do DNA extraction methods matter?

(2017) Valentin Vasselon et al.   Freshwater Science

Application of high-throughput sequencing (HTS) metabarcoding to diatom biomonitoring: Do DNA extraction methods matter?

(2017) Valentin Vasselon et al.   Freshwater Science

Phylogenetic signal in diatom ecology: perspectives for aquatic ecosystems biomonitoring

(2016) François Keck et al.   ECOLOGICAL APPLICATIONS

Trait-based ecological classifications for benthic algae: review and perspectives

(2016) Kálmán Tapolczai et al.   HYDROBIOLOGIA

Separate treatment of hospital and urban wastewaters: A real scale comparison of effluents and their effect on microbial communities

(2016) Teofana Chonova et al.   SCIENCE OF THE TOTAL ENVIRONMENT

R-Syst::diatom: an open-access and curated barcode database for diatoms and freshwater monitoring

(2016) Frédéric Rimet et al.   Database-The Journal of Biological Databases and Curation

Rphylopars: fast multivariate phylogenetic comparative methods for missing data and within-species variation

(2016) Eric W. Goolsby et al.   Methods in Ecology and Evolution

phylosignal: an R package to measure, test, and explore the phylogenetic signal

(2016) François Keck et al.   Ecology and Evolution

Environmental Monitoring: Inferring the Diatom Index from Next-Generation Sequencing Data

(2015) Joana Amorim Visco et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Dissecting signal and noise in diatom chloroplast protein encoding genes with phylogenetic information profiling

(2015) Edward C. Theriot et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

mvmorph: anrpackage for fitting multivariate evolutionary models to morphometric data

(2015) Julien Clavel et al.   Methods in Ecology and Evolution

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

Metabarcoding vs. morphological identification to assess diatom diversity in environmental studies

(2014) Jonas Zimmermann et al.   Molecular Ecology Resources

A Linear-Time Algorithm for Gaussian and Non-Gaussian Trait Evolution Models

(2014) Lam si Tung Ho et al.   SYSTEMATIC BIOLOGY

A next-generation sequencing approach to river biomonitoring using benthic diatoms

(2014) Lenaïg Kermarrec et al.   Freshwater Science

An Inordinate Fondness? The Number, Distributions, and Origins of Diatom Species

(2013) David G. Mann et al.   JOURNAL OF EUKARYOTIC MICROBIOLOGY

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

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

Environmental DNA

(2012) PIERRE TABERLET et al.   MOLECULAR ECOLOGY

Incorporating 16S Gene Copy Number Information Improves Estimates of Microbial Diversity and Abundance

(2012) Steven W. Kembel et al.   PLoS Computational Biology

UCHIME improves sensitivity and speed of chimera detection

(2011) Robert C. Edgar et al.   BIOINFORMATICS

Recent views on river pollution and diatoms

(2011) Frédéric Rimet   HYDROBIOLOGIA

Performance, Accuracy, and Web Server for Evolutionary Placement of Short Sequence Reads under Maximum Likelihood

(2011) Simon A. Berger et al.   SYSTEMATIC BIOLOGY

Evaluation of European diatom trophic indices

(2010) Anna Besse-Lototskaya et al.   ECOLOGICAL INDICATORS

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

ECOLOGICAL DIFFERENTIATION BETWEEN SYMPATRIC PSEUDOCRYPTIC SPECIES IN THE ESTUARINE BENTHIC DIATOM NAVICULA PHYLLEPTA (BACILLARIOPHYCEAE)1

(2009) Bart Vanelslander et al.   JOURNAL OF PHYCOLOGY

PhyloPars: estimation of missing parameter values using phylogeny

(2009) Jorn Bruggeman et al.   NUCLEIC ACIDS RESEARCH