Long-term dynamics in microbial eukaryotes communities: a palaeolimnological view based on sedimentary DNA

Protist metabarcoding and environmental biomonitoring: Time for change

(2016) J. Pawlowski et al.   EUROPEAN JOURNAL OF PROTISTOLOGY

iNEXT: an R package for rarefaction and extrapolation of species diversity (Hill numbers)

(2016) T. C. Hsieh et al.   Methods in Ecology and Evolution

A spatiotemporal investigation of varved sediments highlights the dynamics of hypolimnetic hypoxia in a large hard-water lake over the last 150 years

(2016) Jean-Philippe Jenny et al.   LIMNOLOGY AND OCEANOGRAPHY

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

(2015) Philip Francis Thomsen et al.   BIOLOGICAL CONSERVATION

Acceleration of cyanobacterial dominance in north temperate-subarctic lakes during the Anthropocene

(2015) Zofia E. Taranu et al.   ECOLOGY LETTERS

Marine protist diversity in European coastal waters and sediments as revealed by high-throughput sequencing

(2015) Ramon Massana et al.   ENVIRONMENTAL MICROBIOLOGY

Origin, dynamics, and implications of extracellular DNA pools in marine sediments

(2015) Andrea Torti et al.   Marine Genomics

Is Planktonic Diversity Well Recorded in Sedimentary DNA? Toward the Reconstruction of Past Protistan Diversity

(2015) Eric Capo et al.   MICROBIAL ECOLOGY

Seasonal diversity and dynamics of haptophytes in the Skagerrak, Norway, explored by high-throughput sequencing

(2015) Elianne Sirnaes Egge et al.   MOLECULAR ECOLOGY

Evidence for an active rare biosphere within freshwater protists community

(2015) Didier Debroas et al.   MOLECULAR ECOLOGY

Ecology and exploration of the rare biosphere

(2015) Michael D. J. Lynch et al.   NATURE REVIEWS MICROBIOLOGY

Accurate multiplexing and filtering for high-throughput amplicon-sequencing

(2015) Philippe Esling et al.   NUCLEIC ACIDS RESEARCH

Evolution of pastoralism in Southern Greenland during the last two millennia reconstructed from bile acids and coprophilous fungal spores in lacustrine sediments

(2015) Typhaine Guillemot et al.   ORGANIC GEOCHEMISTRY

Metabolic and trophic interactions modulate methane production by Arctic peat microbiota in response to warming

(2015) Alexander Tøsdal Tveit et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Rarity in aquatic microbes: placing protists on the map

(2015) Ramiro Logares et al.   RESEARCH IN MICROBIOLOGY

Eukaryotic plankton diversity in the sunlit ocean

(2015) C. de Vargas et al.   SCIENCE

Temporal patterns of rarity provide a more complete view of microbial diversity

(2015) Ashley Shade et al.   TRENDS IN MICROBIOLOGY

Genetic data from algae sedimentary DNA reflect the influence of environment over geography

(2015) Kathleen R. Stoof-Leichsenring et al.   Scientific Reports

Response of the rare biosphere to environmental stressors in a highly diverse ecosystem (Zodletone spring, OK, USA)

(2015) Suzanne Coveley et al.   PeerJ

AmpliconDuo: A Split-Sample Filtering Protocol for High-Throughput Amplicon Sequencing of Microbial Communities

(2015) Anja Lange et al.   PLoS One

Patterns of Rare and Abundant Marine Microbial Eukaryotes

(2014) Ramiro Logares et al.   CURRENT BIOLOGY

Protistan diversity in a permanently stratified meromictic lake (Lake Alatsee, SW Germany)

(2014) Andreas Oikonomou et al.   ENVIRONMENTAL MICROBIOLOGY

The need for ecological monitoring of freshwaters in a changing world: a case study of Lakes Annecy, Bourget, and Geneva

(2014) Stéphan Jacquet et al.   ENVIRONMENTAL MONITORING AND ASSESSMENT

Effects of light and prey availability on Arctic freshwater protist communities examined by high-throughput DNA and RNA sequencing

(2014) Sophie Charvet et al.   FEMS MICROBIOLOGY ECOLOGY

Sensitivity and responses of diatoms to climate warming in lakes heavily influenced by humans

(2014) Vincent Berthon et al.   FRESHWATER BIOLOGY

Effects of nutrients and warming onPlanktothrixdynamics and diversity: a palaeolimnological view based on sedimentary DNA and RNA

(2014) Olga Savichtcheva et al.   FRESHWATER BIOLOGY

Inherited hypoxia: A new challenge for reoligotrophicated lakes under global warming

(2014) Jean-Philippe Jenny et al.   GLOBAL BIOGEOCHEMICAL CYCLES

Ancient and modern environmental DNA

(2014) Mikkel Winther Pedersen et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Alkenone distribution in Lake Van sediment over the last 270 ka: influence of temperature and haptophyte species composition

(2014) Marie-Ève Randlett et al.   QUATERNARY SCIENCE REVIEWS

The others: our biased perspective of eukaryotic genomes

(2014) Javier del Campo et al.   TRENDS IN ECOLOGY & EVOLUTION

Conditionally Rare Taxa Disproportionately Contribute to Temporal Changes in Microbial Diversity

(2014) A. Shade et al.   mBio

Identification of Photosynthetic Plankton Communities Using Sedimentary Ancient DNA and Their Response to late-Holocene Climate Change on the Tibetan Plateau

(2014) Weiguo Hou et al.   Scientific Reports

An extended Arctic proxy temperature database for the past 2,000 years

(2014) Nicholas P. McKay et al.   Scientific Data

Phytoplankton configuration in six deep lakes in the peri-Alpine region: are the key drivers related to eutrophication and climate?

(2013) Nicole Gallina et al.   AQUATIC ECOLOGY

Ancient DNA complements microfossil record in deep-sea subsurface sediments

(2013) F. Lejzerowicz et al.   Biology Letters

Rarefaction and extrapolation with Hill numbers: a framework for sampling and estimation in species diversity studies

(2013) Anne Chao et al.   ECOLOGICAL MONOGRAPHS

Local forcings affect lake zooplankton vulnerability and response to climate warming

(2013) Benjamin Alric et al.   ECOLOGY

Seasonality and disturbance: annual pattern and response of the bacterial and microbial eukaryotic assemblages in a freshwater ecosystem

(2013) Adriane Clark Jones et al.   ENVIRONMENTAL MICROBIOLOGY

Mixotrophic haptophytes are key bacterial grazers in oligotrophic coastal waters

(2013) Fernando Unrein et al.   ISME Journal

Trophic history of French sub-alpine lakes over the last ~150 years: phosphorus reconstruction and assessment of taphonomic biases

(2013) Vincent Berthon et al.   JOURNAL OF LIMNOLOGY

The interaction between climate warming and eutrophication to promote cyanobacteria is dependent on trophic state and varies among taxa

(2013) Anna Rigosi et al.   LIMNOLOGY AND OCEANOGRAPHY

UPARSE: highly accurate OTU sequences from microbial amplicon reads

(2013) Robert C Edgar   NATURE METHODS

Phylogenetic Affiliation of SSU rRNA Genes Generated by Massively Parallel Sequencing: New Insights into the Freshwater Protist Diversity

(2013) Najwa Taib et al.   PLoS One

Evidence for a persistent microbial seed bank throughout the global ocean

(2013) S. M. Gibbons et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Evolution of the plankton paleome in the Black Sea from the Deglacial to Anthropocene

(2013) M. J. L. Coolen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Short-term dynamics of diversity patterns: evidence of continual reassembly within lacustrine small eukaryotes

(2012) Jean-François Mangot et al.   ENVIRONMENTAL MICROBIOLOGY

A paleoecological perspective on 1450 years of human impacts from a lake in southern Greenland

(2012) Bianca B Perren et al.   HOLOCENE

A multiproxy evaluation of Holocene environmental change from Lake Igaliku, South Greenland

(2012) Charly Massa et al.   JOURNAL OF PALEOLIMNOLOGY

The effects of changing climate on microzooplankton grazing and community structure: drivers, predictions and knowledge gaps

(2012) David A. Caron et al.   JOURNAL OF PLANKTON RESEARCH

Hidden diversity in diatoms of Kenyan Lake Naivasha: a genetic approach detects temporal variation

(2012) KATHLEEN R. STOOF-LEICHSENRING et al.   MOLECULAR ECOLOGY

Lake Bourget regional erosion patterns reconstruction reveals Holocene NW European Alps soil evolution and paleohydrology

(2012) Fabien Arnaud et al.   QUATERNARY SCIENCE REVIEWS

Recruitment of Members from the Rare Biosphere of Marine Bacterioplankton Communities after an Environmental Disturbance

(2011) Johanna Sjöstedt et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

UCHIME improves sensitivity and speed of chimera detection

(2011) Robert C. Edgar et al.   BIOINFORMATICS

A comparative study of ancient sedimentary DNA, pollen and macrofossils from permafrost sediments of northern Siberia reveals long-term vegetational stability

(2011) TINA JØRGENSEN et al.   MOLECULAR ECOLOGY

Two decades of describing the unseen majority of aquatic microbial diversity

(2011) LUCIE ZINGER et al.   MOLECULAR ECOLOGY

Source-specific variability in post-depositional DNA preservation with potential implications for DNA based paleoecological records

(2011) Arjan C. Boere et al.   ORGANIC GEOCHEMISTRY

2500 Years of European Climate Variability and Human Susceptibility

(2011) U. Buntgen et al.   SCIENCE

Reconstruction of the recent history of a large deep prealpine lake (Lake Bourget, France) using subfossil chironomids, diatoms, and organic matter analysis: towards the definition of a lake-specific reference state

(2010) Laurent Millet et al.   JOURNAL OF PALEOLIMNOLOGY

Contrasting seasonal niche separation between rare and abundant taxa conceals the extent of protist diversity

(2010) VIOLA NOLTE et al.   MOLECULAR ECOLOGY

Phytoplankton dynamics in Lake Biwa during the 20th century: complex responses to climate variation and changes in nutrient status

(2009) Narumi K. Tsugeki et al.   JOURNAL OF PALEOLIMNOLOGY

Sedimentological and geochemical records of past trophic state and hypolimnetic anoxia in large, hard-water Lake Bourget, French Alps

(2009) Charline Giguet-Covex et al.   JOURNAL OF PALEOLIMNOLOGY

Unexpected Importance of Potential Parasites in the Composition of the Freshwater Small-Eukaryote Community

(2008) C. Lepere et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Decadal variability of sea surface temperatures off North Iceland over the last 2000 years

(2008) Marie-Alexandrine Sicre et al.   EARTH AND PLANETARY SCIENCE LETTERS

Genetic Diversity of Eukaryotic Microorganisms in Lake Taihu, a Large Shallow Subtropical Lake in China

(2008) Meijun Chen et al.   MICROBIAL ECOLOGY

Damage and degradation rates of extracellular DNA in marine sediments: implications for the preservation of gene sequences

(2008) C. CORINALDESI et al.   MOLECULAR ECOLOGY

The Microbial Engines That Drive Earth's Biogeochemical Cycles

(2008) P. G. Falkowski et al.   SCIENCE