Regulation of ion transport and energy metabolism enables certain coral genotypes to maintain calcification under experimental ocean acidification

Differential responses to ocean acidification between populations of Balanophyllia elegans corals from high and low upwelling environments

(2019) Joanna S. Griffiths et al.   MOLECULAR ECOLOGY

rnaSPAdes: a de novo transcriptome assembler and its application to RNA-Seq data

(2019) Elena Bushmanova et al.   GigaScience

Ion transporter gene expression is linked to the thermal sensitivity of calcification in the reef coral Stylophora pistillata

(2019) C. Bernardet et al.   Scientific Reports

Growth and feeding of deep-sea coral Lophelia pertusa from the California margin under simulated ocean acidification conditions

(2018) Carlos E. Gómez et al.   PeerJ

BUSCO Applications from Quality Assessments to Gene Prediction and Phylogenomics

(2017) Robert M Waterhouse et al.   MOLECULAR BIOLOGY AND EVOLUTION

Transcriptome dynamics over a lunar month in a broadcast spawning acroporid coral

(2017) Matthew J. Oldach et al.   MOLECULAR ECOLOGY

Tidal heat pulses on a reef trigger a fine-tuned transcriptional response in corals to maintain homeostasis

(2017) Lupita J. Ruiz-Jones et al.   Science Advances

Lunar Phase Modulates Circadian Gene Expression Cycles in the Broadcast Spawning Coral Acropora millepora

(2016) Aisling K. Brady et al.   BIOLOGICAL BULLETIN

TransRate: reference-free quality assessment of de novo transcriptome assemblies

(2016) Richard Smith-Unna et al.   GENOME RESEARCH

Deep-sea coral δ 13 C: A tool to reconstruct the difference between seawater pH and δ 11 B-derived calcifying fluid pH

(2016) Patrick Martin et al.   GEOPHYSICAL RESEARCH LETTERS

Biogeographic variability in the physiological response of the cold-water coralLophelia pertusato ocean acidification

(2016) Samuel E. Georgian et al.   Marine Ecology-An Evolutionary Perspective

BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs

(2015) Felipe A. Simão et al.   BIOINFORMATICS

Climatological distribution of aragonite saturation state in the global oceans

(2015) Li-Qing Jiang et al.   GLOBAL BIOGEOCHEMICAL CYCLES

Oceanographic patterns and carbonate chemistry in the vicinity of cold-water coral reefs in the Gulf of Mexico: Implications for resilience in a changing ocean

(2015) Samuel E. Georgian et al.   LIMNOLOGY AND OCEANOGRAPHY

Expression of calcification and metabolism-related genes in response to elevated pCO2 and temperature in the reef-building coral Acropora millepora

(2015) Melissa M. Rocker et al.   Marine Genomics

Rapid acclimation of juvenile corals to CO2-mediated acidification by upregulation of heat shock protein and Bcl-2 genes

(2015) A. Moya et al.   MOLECULAR ECOLOGY

Diurnal and nocturnal transcriptomic variation in the Caribbean staghorn coral,Acropora cervicornis

(2015) Elizabeth M. Hemond et al.   MOLECULAR ECOLOGY

Hidden impacts of ocean acidification to live and dead coral framework

(2015) S. J. Hennige et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Responses of pink salmon to CO2-induced aquatic acidification

(2015) Michelle Ou et al.   Nature Climate Change

Bicarbonate transporters in corals point towards a key step in the evolution of cnidarian calcification

(2015) Didier Zoccola et al.   Scientific Reports

Rcorrector: efficient and accurate error correction for Illumina RNA-seq reads

(2015) Li Song et al.   GigaScience

Altered neurotransmitter function in CO2-exposed stickleback (Gasterosteus aculeatus): a temperate model species for ocean acidification research

(2015) Floriana Lai et al.   Conservation Physiology

The genetics of colony form and function in Caribbean Acropora corals

(2015) Elizabeth M Hemond et al.   BMC GENOMICS

Transcriptomic Changes in Coral Holobionts Provide Insights into Physiological Challenges of Future Climate and Ocean Change

(2015) Paulina Kaniewska et al.   PLoS One

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Differential response of two Mediterranean cold-water coral species to ocean acidification

(2014) Juancho Movilla et al.   CORAL REEFS

Molecular mechanisms underlying the physiological responses of the cold-water coral Desmophyllum dianthus to ocean acidification

(2014) M. Carreiro-Silva et al.   CORAL REEFS

Biodiversity and community composition of sediment macrofauna associated with deep-sea Lophelia pertusa habitats in the Gulf of Mexico

(2014) Amanda W.J. Demopoulos et al.   DEEP-SEA RESEARCH PART I-OCEANOGRAPHIC RESEARCH PAPERS

Ocean acidification slows retinal function in a damselfish through interference with GABAA receptors

(2014) W.-S. Chung et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Design, development, and implementation of recirculating aquaria for maintenance and experimentation of deep-sea corals and associated fauna

(2014) Jay J. Lunden et al.   LIMNOLOGY AND OCEANOGRAPHY-METHODS

High-resolution ecological niche modelling of the cold-water coral Lophelia pertusa in the Gulf of Mexico

(2014) SE Georgian et al.   MARINE ECOLOGY PROGRESS SERIES

Saturation-state sensitivity of marine bivalve larvae to ocean acidification

(2014) George G. Waldbusser et al.   Nature Climate Change

Kraken: ultrafast metagenomic sequence classification using exact alignments

(2014) Derrick E Wood et al.   GENOME BIOLOGY

Short-term metabolic and growth responses of the cold-water coral Lophelia pertusa to ocean acidification

(2013) S.J. Hennige et al.   DEEP-SEA RESEARCH PART II-TOPICAL STUDIES IN OCEANOGRAPHY

Impaired learning of predators and lower prey survival under elevated CO2: a consequence of neurotransmitter interference

(2013) Douglas P. Chivers et al.   GLOBAL CHANGE BIOLOGY

Aragonite saturation states at cold-water coral reefs structured byLophelia pertusain the northern Gulf of Mexico

(2013) Jay J. Lunden et al.   LIMNOLOGY AND OCEANOGRAPHY

Variation in the transcriptional response of threatened coral larvae to elevated temperatures

(2013) Nicholas R. Polato et al.   MOLECULAR ECOLOGY

Genes Related to Ion-Transport and Energy Production Are Upregulated in Response to CO2-Driven pH Decrease in Corals: New Insights from Transcriptome Analysis

(2013) Jeremie Vidal-Dupiol et al.   PLoS One

Evolutionary change during experimental ocean acidification

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

Genomic basis for coral resilience to climate change

(2013) Daniel J. Barshis et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Marine mollusc predator-escape behaviour altered by near-future carbon dioxide levels

(2013) S.-A. Watson et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

CO2-induced ocean acidification increases anxiety in Rockfish via alteration of GABAA receptor functioning

(2013) T. J. Hamilton et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Immune response of the Caribbean sea fan, Gorgonia ventalina, exposed to an Aplanochytrium parasite as revealed by transcriptome sequencing

(2013) Colleen A. Burge et al.   Frontiers in Physiology

Effects of ocean acidification on the metabolic rates of three species of bivalve from southern coast of China

(2012) Wenguang Liu et al.   CHINESE JOURNAL OF OCEANOLOGY AND LIMNOLOGY

Resilience of cold-water scleractinian corals to ocean acidification: Boron isotopic systematics of pH and saturation state up-regulation

(2012) Malcolm McCulloch et al.   GEOCHIMICA ET COSMOCHIMICA ACTA

Megafaunal-habitat associations at a deep-sea coral mound off North Carolina, USA

(2012) Andrea M. Quattrini et al.   MARINE BIOLOGY

Effects of ocean acidification and elevated temperature on shell plasticity and its energetic basis in an intertidal gastropod

(2012) S Melatunan et al.   MARINE ECOLOGY PROGRESS SERIES

Whole Transcriptome Analysis of the CoralAcropora milleporaReveals Complex Responses to CO2-driven Acidification during the Initiation of Calcification

(2012) A. MOYA et al.   MOLECULAR ECOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Major Cellular and Physiological Impacts of Ocean Acidification on a Reef Building Coral

(2012) Paulina Kaniewska et al.   PLoS One

Coral resilience to ocean acidification and global warming through pH up-regulation

(2012) Malcolm McCulloch et al.   Nature Climate Change

A fast, lock-free approach for efficient parallel counting of occurrences of k-mers

(2011) Guillaume Marçais et al.   BIOINFORMATICS

Quality control and preprocessing of metagenomic datasets

(2011) R. Schmieder et al.   BIOINFORMATICS

Genetic discontinuity among regional populations of Lophelia pertusa in the North Atlantic Ocean

(2011) Cheryl L. Morrison et al.   CONSERVATION GENETICS

Acclimation to ocean acidification during long-term CO2 exposure in the cold-water coral Lophelia pertusa

(2011) Armin U. Form et al.   GLOBAL CHANGE BIOLOGY

Coral Larvae under Ocean Acidification: Survival, Metabolism, and Metamorphosis

(2011) Masako Nakamura et al.   PLoS One

Global Habitat Suitability for Framework-Forming Cold-Water Corals

(2011) Andrew J. Davies et al.   PLoS One

Gene Discovery in the Threatened Elkhorn Coral: 454 Sequencing of the Acropora palmata Transcriptome

(2011) Nicholas R. Polato et al.   PLoS One

Development and heat stress-induced transcriptomic changes during embryogenesis of the scleractinian coral Acropora palmata

(2010) Kevin J. Portune et al.   Marine Genomics

Coral communities of the deep Gulf of Mexico

(2008) Erik E. Cordes et al.   DEEP-SEA RESEARCH PART I-OCEANOGRAPHIC RESEARCH PAPERS

Ecosystem effects of ocean acidification in times of ocean warming: a physiologist’s view

(2008) H Pörtner   MARINE ECOLOGY PROGRESS SERIES

Characterization of 13 microsatellite loci for the deep-sea coral,Lophelia pertusa(Linnaeus 1758), from the western North Atlantic Ocean and Gulf of Mexico

(2008) CHERYL L. MORRISON et al.   Molecular Ecology Resources