Environmental stability impacts the differential sensitivity of marine microbiomes to increases in temperature and acidity

Iterative subtractive binning of freshwater chronoseries metagenomes identifies over 400 novel species and their ecologic preferences

(2020) Luis M. Rodriguez‐R et al.   ENVIRONMENTAL MICROBIOLOGY

The challenges of detecting and attributing ocean acidification impacts on marine ecosystems

(2020) Steve S Doo et al.   ICES JOURNAL OF MARINE SCIENCE

Ocean acidification regulates the activity, community structure and functional potential of heterotrophic bacterioplankton in an oligotrophic gyre

(2019) Xiaomin Xia et al.   Journal of Geophysical Research-Biogeosciences

Ecogenomic characterization of widespread, closely-related SAR11 clades of the freshwater genus “Candidatus Fonsibacter” and proposal of Ca. Fonsibacter lacus sp. nov

(2019) Despina Tsementzi et al.   SYSTEMATIC AND APPLIED MICROBIOLOGY

Microbial communities across nearshore to offshore coastal transects are primarily shaped by distance and temperature

(2019) Zhao Wang et al.   ENVIRONMENTAL MICROBIOLOGY

Transient exposure to novel high temperatures reshapes coastal phytoplankton communities

(2019) Joshua D. Kling et al.   ISME Journal

A unified conceptual framework for prediction and control of microbiomes

(2018) James C Stegen et al.   CURRENT OPINION IN MICROBIOLOGY

The reconstruction of 2,631 draft metagenome-assembled genomes from the global oceans

(2018) Benjamin J. Tully et al.   Scientific Data

The impact of elevated CO2 on Prochlorococcus and microbial interactions with ‘helper’ bacterium Alteromonas

(2017) Gwenn MM Hennon et al.   ISME Journal

Annual community patterns are driven by seasonal switching between closely related marine bacteria

(2017) Christopher S Ward et al.   ISME Journal

Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life

(2017) Donovan H. Parks et al.   Nature Microbiology

Microorganisms and ocean global change

(2017) David A. Hutchins et al.   Nature Microbiology

Acidification and warming affect prominent bacteria in two seasonal phytoplankton bloom mesocosms

(2016) Benjamin Bergen et al.   ENVIRONMENTAL MICROBIOLOGY

Response of marine bacterioplankton pH homeostasis gene expression to elevated CO2

(2016) Carina Bunse et al.   Nature Climate Change

Resilience vs. historical contingency in microbial responses to environmental change

(2015) Christine V. Hawkes et al.   ECOLOGY LETTERS

Thermally adaptive tradeoffs in closely related marine bacterial strains

(2015) Cheuk-Man Yung et al.   ENVIRONMENTAL MICROBIOLOGY

Every base matters: assessing small subunit rRNA primers for marine microbiomes with mock communities, time series and global field samples

(2015) Alma E. Parada et al.   ENVIRONMENTAL MICROBIOLOGY

metaxa2: improved identification and taxonomic classification of small and large subunit rRNA in metagenomic data

(2015) Johan Bengtsson-Palme et al.   Molecular Ecology Resources

Impact of ocean acidification on the structure of future phytoplankton communities

(2015) Stephanie Dutkiewicz et al.   Nature Climate Change

A network-based approach to disturbance transmission through microbial interactions

(2015) Dana E. Hunt et al.   Frontiers in Microbiology

Minimum entropy decomposition: Unsupervised oligotyping for sensitive partitioning of high-throughput marker gene sequences

(2014) A Murat Eren et al.   ISME Journal

Implications of streamlining theory for microbial ecology

(2014) Stephen J Giovannoni et al.   ISME Journal

Fast and sensitive protein alignment using DIAMOND

(2014) Benjamin Buchfink et al.   NATURE METHODS

Marine bacterial communities are resistant to elevated carbon dioxide levels

(2014) Anna E. Oliver et al.   Environmental Microbiology Reports

Evaluation of metatranscriptomic protocols and application to the study of freshwater microbial communities

(2014) Despina Tsementzi et al.   Environmental Microbiology Reports

Impact of warming on phyto-bacterioplankton coupling and bacterial community composition in experimental mesocosms

(2013) Markus von Scheibner et al.   ENVIRONMENTAL MICROBIOLOGY

Evaluating rRNA as an indicator of microbial activity in environmental communities: limitations and uses

(2013) Steven J Blazewicz et al.   ISME Journal

UPARSE: highly accurate OTU sequences from microbial amplicon reads

(2013) Robert C Edgar   NATURE METHODS

Dramatic Variability of the Carbonate System at a Temperate Coastal Ocean Site (Beaufort, North Carolina, USA) Is Regulated by Physical and Biogeochemical Processes on Multiple Timescales

(2013) Zackary I. Johnson et al.   PLoS One

The impact of temperature on marine phytoplankton resource allocation and metabolism

(2013) A. Toseland et al.   Nature Climate Change

Relationship between Abundance and Specific Activity of Bacterioplankton in Open Ocean Surface Waters

(2012) Dana E. Hunt et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Effect of ocean acidification on cyanobacteria in the subtropical North Atlantic

(2012) MW Lomas et al.   AQUATIC MICROBIAL ECOLOGY

SortMeRNA: fast and accurate filtering of ribosomal RNAs in metatranscriptomic data

(2012) Evguenia Kopylova et al.   BIOINFORMATICS

The response of marine picoplankton to ocean acidification

(2012) Lindsay K. Newbold et al.   ENVIRONMENTAL MICROBIOLOGY

ELEVATED CARBON DIOXIDE DIFFERENTIALLY ALTERS THE PHOTOPHYSIOLOGY OF THALASSIOSIRA PSEUDONANA (BACILLARIOPHYCEAE) AND EMILIANIA HUXLEYI (HAPTOPHYTA)1

(2012) Avery McCarthy et al.   JOURNAL OF PHYCOLOGY

Rfam 11.0: 10 years of RNA families

(2012) Sarah W. Burge et al.   NUCLEIC ACIDS RESEARCH

Phylogenomics of Prokaryotic Ribosomal Proteins

(2012) Natalya Yutin et al.   PLoS One

A Global Pattern of Thermal Adaptation in Marine Phytoplankton

(2012) M. K. Thomas et al.   SCIENCE

Consequences of increased temperature and acidification on bacterioplankton community composition during a mesocosm spring bloom in the Baltic Sea

(2012) Markus V. Lindh et al.   Environmental Microbiology Reports

Fundamentals of Microbial Community Resistance and Resilience

(2012) Ashley Shade et al.   Frontiers in Microbiology

Evidence for a temperature acclimation mechanism in bacteria: an empirical test of a membrane-mediated trade-off

(2010) Edward K. Hall et al.   FUNCTIONAL ECOLOGY

The effect of iron- and light-limitation on phytoplankton communities of deep chlorophyll maxima of the western Pacific Ocean

(2010) Zackary I. Johnson et al.   JOURNAL OF MARINE RESEARCH

Physical and biogeochemical modulation of ocean acidification in the central North Pacific

(2009) J. E. Dore et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Changes in biogenic carbon flow in response to sea surface warming

(2009) J. Wohlers et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The genomic basis of trophic strategy in marine bacteria

(2009) F. M. Lauro et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Resistance, resilience, and redundancy in microbial communities

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

A latitudinal diversity gradient in planktonic marine bacteria

(2008) J. A. Fuhrman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

CLIMATE: Blooms Like It Hot

(2008) H. W. Paerl et al.   SCIENCE