Complex dynamics of coral gene expression responses to low pH across species

Investigating calcification-related candidates in a non-symbiotic scleractinian coral, Tubastraea spp.

(2022) Laura Capasso et al.   Scientific Reports

Environmental memory gained from exposure to extreme pCO 2 variability promotes coral cellular acid–base homeostasis

(2022) Kristen T. Brown et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

A framework for understanding gene expression plasticity and its influence on stress tolerance

(2021) Hanny E. Rivera et al.   MOLECULAR ECOLOGY

Intracellular pH regulation: characterization and functional investigation of H+ transporters in Stylophora pistillata

(2021) Laura Capasso et al.   BMC Molecular and Cell Biology

New Insights From Transcriptomic Data Reveal Differential Effects of CO2 Acidification Stress on Photosynthesis of an Endosymbiotic Dinoflagellate in hospite

(2021) Marcela Herrera et al.   Frontiers in Microbiology

Tolerance to a highly variable environment does not infer resilience to future ocean warming and acidification in a branching coral

(2021) Michaela Rathbone et al.   LIMNOLOGY AND OCEANOGRAPHY

Coral micro- and macro-morphological skeletal properties in response to life-long acclimatization at CO2 vents in Papua New Guinea

(2021) Fiorella Prada et al.   Scientific Reports

Paradise lost: End‐of‐century warming and acidification under business‐as‐usual emissions have severe consequences for symbiotic corals

(2020) Rene M. Zande et al.   GLOBAL CHANGE BIOLOGY

Adaptive divergence, neutral panmixia, and algal symbiont population structure in the temperate coral Astrangia poculata along the Mid-Atlantic United States

(2020) Hannah E. Aichelman et al.   PeerJ

Gene Expression Profiles of Two Coral Species with Varied Resistance to Ocean Acidification

(2019) Xiangcheng Yuan et al.   MARINE BIOTECHNOLOGY

A Potential Role for Epigenetic Processes in the Acclimation Response to Elevated pCO2 in the Model Diatom Phaeodactylum tricornutum

(2019) Ruiping Huang et al.   Frontiers in Microbiology

Genome analysis of the rice coral Montipora capitata

(2019) Alexander Shumaker et al.   Scientific Reports

Ocean acidification at a coastal CO2 vent induces expression of stress-related transcripts and transposable elements in the sea anemone Anemonia viridis

(2019) Ilona Urbarova et al.   PLoS One

Species-specific calcification response of Caribbean corals after 2-year transplantation to a low aragonite saturation submarine spring

(2019) Ana Martinez et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Evidence that inconsistent gene prediction can mislead analysis of dinoflagellate genomes

(2019) Yibi Chen et al.   JOURNAL OF PHYCOLOGY

Ocean acidification affects coral growth by reducing skeletal density

(2018) Nathaniel R. Mollica et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Decline in symbiont densities of tropical and subtropical scleractinian corals under ocean acidification

(2018) Robert A. B. Mason   CORAL REEFS

Functional genomic analysis of corals from natural CO2 -seeps reveals core molecular responses involved in acclimatization to ocean acidification

(2017) Carly D. Kenkel et al.   GLOBAL CHANGE BIOLOGY

Elevated p CO 2 affects tissue biomass composition, but not calcification, in a reef coral under two light regimes

(2017) C. B. Wall et al.   Royal Society Open Science

Integrating the Effects of Ocean Acidification across Functional Scales on Tropical Coral Reefs

(2016) Peter J. Edmunds et al.   BIOSCIENCE

Characterization of the Cadherin–Catenin Complex of the Sea AnemoneNematostella vectensisand Implications for the Evolution of Metazoan Cell–Cell Adhesion

(2016) Donald Nathaniel Clarke et al.   MOLECULAR BIOLOGY AND EVOLUTION

Stepwise Evolution of Coral Biomineralization Revealed with Genome-Wide Proteomics and Transcriptomics

(2016) Takeshi Takeuchi et al.   PLoS One

Temporal and spatial expression patterns of biomineralization proteins during early development in the stony coralPocillopora damicornis

(2016) Tali Mass et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Reefgenomics.Org - a repository for marine genomics data

(2016) Yi Jin Liew et al.   Database-The Journal of Biological Databases and Curation

Comparative genomics explains the evolutionary success of reef-forming corals

(2016) Debashish Bhattacharya et al.   eLife

Gene expression plasticity as a mechanism of coral adaptation to a variable environment

(2016) Carly D. Kenkel et al.   Nature Ecology & Evolution

Differential localization of ion transporters suggests distinct cellular mechanisms for calcification and photosynthesis between two coral species

(2015) Katie L. Barott et al.   AMERICAN JOURNAL OF PHYSIOLOGY-REGULATORY INTEGRATIVE AND COMPARATIVE PHYSIOLOGY

Physiological and ecological performance differs in four coral taxa at a volcanic carbon dioxide seep

(2015) J. Strahl et al.   COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY A-MOLECULAR & INTEGRATIVE PHYSIOLOGY

Ocean acidification induces biochemical and morphological changes in the calcification process of large benthic foraminifera

(2015) M. Prazeres et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Genomic determinants of coral heat tolerance across latitudes

(2015) G. B. Dixon et al.   SCIENCE

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

(2015) Didier Zoccola et al.   Scientific Reports

Changes in coral reef communities across a natural gradient in seawater pH

(2015) H. C. Barkley et al.   Science Advances

MCMC Methods for Multi-Response Generalized Linear Mixed Models: TheMCMCglmmRPackage

(2015) Jarrod D. Hadfield   Journal of Statistical Software

FastRFunctions for Robust Correlations and Hierarchical Clustering

(2015) Peter Langfelder et al.   Journal of Statistical Software

AssessingSymbiodiniumdiversity in scleractinian corals via next-generation sequencing-based genotyping of the ITS2 rDNA region

(2014) Chatchanit Arif et al.   MOLECULAR ECOLOGY

Coral host cells acidify symbiotic algal microenvironment to promote photosynthesis

(2014) Katie L. Barott et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Gene expression under chronic heat stress in populations of the mustard hill coral (Porites astreoides ) from different thermal environments

(2013) C. D. Kenkel et al.   MOLECULAR ECOLOGY

De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis

(2013) Brian J Haas et al.   Nature Protocols

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

Proteomic analysis of skeletal organic matrix from the stony coral Stylophora pistillata

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

Reduced calcification and lack of acclimatization by coral colonies growing in areas of persistent natural acidification

(2013) E. D. Crook 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

Spatial community shift from hard to soft corals in acidified water

(2013) Shihori Inoue et al.   Nature Climate Change

Protein evolution in two co-occurring types of Symbiodinium: an exploration into the genetic basis of thermal tolerance in Symbiodinium clade D

(2012) Jason T Ladner et al.   BMC EVOLUTIONARY BIOLOGY

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

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

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

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

Calcifying coral abundance near low-pH springs: implications for future ocean acidification

(2011) E. D. Crook et al.   CORAL REEFS

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

High-Frequency Dynamics of Ocean pH: A Multi-Ecosystem Comparison

(2011) Gretchen E. Hofmann et al.   PLoS One

Losers and winners in coral reefs acclimatized to elevated carbon dioxide concentrations

(2011) Katharina E. Fabricius et al.   Nature Climate Change

Discriminant analysis of principal components: a new method for the analysis of genetically structured populations

(2010) Thibaut Jombart et al.   BMC GENETICS

Meta-analysis reveals negative yet variable effects of ocean acidification on marine organisms

(2010) Kristy J. Kroeker et al.   ECOLOGY LETTERS

Gene ontology analysis for RNA-seq: accounting for selection bias

(2010) Matthew D Young et al.   GENOME BIOLOGY

Morphological and compositional changes in the skeletons of new coral recruits reared in acidified seawater: Insights into the biomineralization response to ocean acidification

(2009) Anne L. Cohen et al.   GEOCHEMISTRY GEOPHYSICS GEOSYSTEMS

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Regulation of cell–cell adhesion by the cadherin–catenin complex

(2008) W. James Nelson   BIOCHEMICAL SOCIETY TRANSACTIONS

adegenet: a R package for the multivariate analysis of genetic markers

(2008) Thibaut Jombart   BIOINFORMATICS

WGCNA: an R package for weighted correlation network analysis

(2008) Peter Langfelder et al.   BMC BIOINFORMATICS

Coral calcification responds to seawater acidification: a working hypothesis towards a physiological mechanism

(2008) F. Marubini et al.   CORAL REEFS

Effect of aragonite saturation state on settlement and post-settlement growth of Porites astreoides larvae

(2008) R. Albright et al.   CORAL REEFS

Using functional genomics to explore the effects of ocean acidification on calcifying marine organisms

(2008) GE Hofmann et al.   MARINE ECOLOGY PROGRESS SERIES