Genomewide transcriptional reprogramming in the seagrass Cymodocea nodosa under experimental ocean acidification

Linking gene expression to productivity to unravel long- and short-term responses of seagrasses exposed to CO2 in volcanic vents

(2017) Irene Olivé et al.   Scientific Reports

Interactive Effects of Seawater Acidification and Elevated Temperature on the Transcriptome and Biomineralization in the Pearl Oyster Pinctada fucata

(2016) Shiguo Li et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Effects of Seawater Acidification on Gene Expression: Resolving Broader-Scale Trends in Sea Urchins

(2016) Tyler G. Evans et al.   BIOLOGICAL BULLETIN

Mechanisms of bicarbonate use influence the photosynthetic carbon dioxide sensitivity of tropical seagrasses

(2016) Justin E. Campbell et al.   LIMNOLOGY AND OCEANOGRAPHY

Annocript: a flexible pipeline for the annotation of transcriptomes able to identify putative long noncoding RNAs

(2015) F. Musacchia et al.   BIOINFORMATICS

The effects of long-termin situCO2enrichment on tropical seagrass communities at volcanic vents

(2015) M. Takahashi et al.   ICES JOURNAL OF MARINE SCIENCE

Responses of three tropical seagrass species to CO2 enrichment

(2015) Y. X. Ow et al.   MARINE BIOLOGY

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

Heterologous expression of chloroplast-localized geranylgeranyl pyrophosphate synthase confers fast plant growth, early flowering and increased seed yield

(2015) Sandeep Kumar Tata et al.   PLANT BIOTECHNOLOGY JOURNAL

Experimental ocean acidification alters the allocation of metabolic energy

(2015) T.-C. Francis Pan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Ocean acidification increases the accumulation of toxic phenolic compounds across trophic levels

(2015) Peng Jin et al.   Nature Communications

Next Generation Sequencing Technologies: The Doorway to the Unexplored Genomics of Non-Model Plants

(2015) Chibuikem I. N. Unamba et al.   Frontiers in Plant Science

Response and adaptation of photosynthesis, respiration, and antioxidant systems to elevated CO2 with environmental stress in plants

(2015) Zhenzhu Xu et al.   Frontiers in Plant Science

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Gene expression profiling in gills of the great spider crab Hyas araneus in response to ocean acidification and warming

(2014) Lars Harms et al.   BMC GENOMICS

Shotgun proteomics reveals physiological response to ocean acidification in Crassostrea gigas

(2014) Emma Timmins-Schiffman et al.   BMC GENOMICS

New Lignans and Their Biological Activities

(2014) Jia Zhang et al.   CHEMISTRY & BIODIVERSITY

Branchial NH4+-dependent acid–base transport mechanisms and energy metabolism of squid (Sepioteuthis lessoniana) affected by seawater acidification

(2014) Marian Y Hu et al.   Frontiers in Zoology

Changes in the global value of ecosystem services

(2014) Robert Costanza et al.   GLOBAL ENVIRONMENTAL CHANGE-HUMAN AND POLICY DIMENSIONS

Response of the seagrass Posidonia oceanica to different light environments: Insights from a combined molecular and photo-physiological study

(2014) E. Dattolo et al.   MARINE ENVIRONMENTAL RESEARCH

Seagrass ecosystem response to long-term high CO2 in a Mediterranean volcanic vent

(2014) Eugenia T. Apostolaki et al.   MARINE ENVIRONMENTAL RESEARCH

Genome-wide transcriptomic responses of the seagrasses Zostera marina and Nanozostera noltii under a simulated heatwave confirm functional types

(2014) Susanne U. Franssen et al.   Marine Genomics

De Novo Assembly and Characterization of the Transcriptome of Seagrass Zostera marina Using Illumina Paired-End Sequencing

(2014) Fanna Kong et al.   PLoS One

The diverse roles of FRO family metalloreductases in iron and copper homeostasis

(2014) Anshika Jain et al.   Frontiers in Plant Science

Functions of autophagy in plant carbon and nitrogen metabolism

(2014) Chenxia Ren et al.   Frontiers in Plant Science

Climate change in the oceans: evolutionary versus phenotypically plastic responses of marine animals and plants

(2013) Thorsten B. H. Reusch   Evolutionary Applications

Impacts of ocean acidification on marine organisms: quantifying sensitivities and interaction with warming

(2013) Kristy J. Kroeker et al.   GLOBAL CHANGE BIOLOGY

Future seagrass beds: Can increased productivity lead to increased carbon storage?

(2013) Bayden D. Russell et al.   MARINE POLLUTION BULLETIN

Transcriptomic responses to ocean acidification in larval sea urchins from a naturally variable pH environment

(2013) Tyler G. Evans 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

Effects of Elevated CO2 on Levels of Primary Metabolites and Transcripts of Genes Encoding Respiratory Enzymes and Their Diurnal Patterns in Arabidopsis thaliana: Possible Relationships with Respiratory Rates

(2013) Chihiro K. Watanabe et al.   PLANT AND CELL PHYSIOLOGY

Transcriptional reprogramming and stimulation of leaf respiration by elevated CO2concentration is diminished, but not eliminated, under limiting nitrogen supply

(2013) R. J. CODY MARKELZ et al.   PLANT CELL AND ENVIRONMENT

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

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

Stimulated Leaf Dark Respiration in Tomato in an Elevated Carbon Dioxide Atmosphere

(2013) Xin Li et al.   Scientific Reports

Establishing Research Strategies, Methodologies and Technologies to Link Genomics and Proteomics to Seagrass Productivity, Community Metabolism, and Ecosystem Carbon Fluxes

(2013) Silvia Mazzuca et al.   Frontiers in Plant Science

Climate change and ocean acidification effects on seagrasses and marine macroalgae

(2012) Marguerite Koch et al.   GLOBAL CHANGE BIOLOGY

Identifying core features of adaptive metabolic mechanisms for chronic heat stress attenuation contributing to systems robustness

(2012) Jenny Gu et al.   Integrative Biology

Reference genes assessment for the seagrass Posidonia oceanica in different salinity, pH and light conditions

(2012) Ilia Anna Serra et al.   MARINE 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

New Insights into Plant Isoprenoid Metabolism

(2012) Pablo Pulido et al.   Molecular Plant

Structure and Dynamics of the Isoprenoid Pathway Network

(2012) Eva Vranová et al.   Molecular Plant

Update on activities at the Universal Protein Resource (UniProt) in 2013

(2012)   NUCLEIC ACIDS RESEARCH

CDD: conserved domains and protein three-dimensional structure

(2012) Aron Marchler-Bauer et al.   NUCLEIC ACIDS RESEARCH

Defining the limits of physiological plasticity: how gene expression can assess and predict the consequences of ocean change

(2012) T. G. Evans et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Peptidyl-prolyl cis-trans isomerase ROF2 modulates intracellular pH homeostasis in Arabidopsis

(2012) Gaetano Bissoli et al.   PLANT JOURNAL

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

(2012) Paulina Kaniewska et al.   PLoS One

Ocean Acidification and the Loss of Phenolic Substances in Marine Plants

(2012) Thomas Arnold et al.   PLoS One

Transcriptional and Metabolic Insights into the Differential Physiological Responses of Arabidopsis to Optimal and Supraoptimal Atmospheric CO2

(2012) Fatma Kaplan et al.   PLoS One

Effects of CO2enrichment on photosynthesis, growth, and nitrogen metabolism of the seagrassZostera noltii

(2012) Ana Alexandre et al.   Ecology and Evolution

Back to the sea twice: identifying candidate plant genes for molecular evolution to marine life

(2011) Lothar Wissler et al.   BMC EVOLUTIONARY BIOLOGY

Expressed sequence tags from heat-shocked seagrass Zostera noltii (Hornemann) from its southern distribution range

(2011) Sónia I. Massa et al.   Marine Genomics

Molecular chaperones in protein folding and proteostasis

(2011) F. Ulrich Hartl et al.   NATURE

UniPathway: a resource for the exploration and annotation of metabolic pathways

(2011) Anne Morgat et al.   NUCLEIC ACIDS RESEARCH

Ocean Acidification: Present Conditions and Future Changes in a High-CO2 World

(2011) Richard Feely et al.   OCEANOGRAPHY

Warming up, turning sour, losing breath: ocean biogeochemistry under global change

(2011) N. Gruber   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY A-MATHEMATICAL PHYSICAL AND ENGINEERING SCIENCES

Transcriptomic resilience to global warming in the seagrass Zostera marina, a marine foundation species

(2011) S. U. Franssen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

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

The Effect of Ocean Acidification on Calcifying Organisms in Marine Ecosystems: An Organism-to-Ecosystem Perspective

(2010) Gretchen E. Hofmann et al.   Annual Review of Ecology Evolution and Systematics

The value of estuarine and coastal ecosystem services

(2010) Edward B. Barbier et al.   ECOLOGICAL MONOGRAPHS

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

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

Applications of next generation sequencing in molecular ecology of non-model organisms

(2010) R Ekblom et al.   HEREDITY

Impacts of Elevated Atmospheric CO2 and O3 on Forests: Phytochemistry, Trophic Interactions, and Ecosystem Dynamics

(2010) Richard L. Lindroth   JOURNAL OF CHEMICAL ECOLOGY

Effect of explosive shallow hydrothermal vents on δ13C and growth performance in the seagrass Posidonia oceanica

(2010) Salvatrice Vizzini et al.   JOURNAL OF ECOLOGY

Global Change Effects on Plant Chemical Defenses against Insect Herbivores

(2010) M. Gabriela Bidart-Bouzat et al.   Journal of Integrative Plant Biology

Effects of CO2 Enrichment on Photosynthesis, Growth, and Biochemical Composition of Seagrass Thalassia hemprichii (Ehrenb.) Aschers

(2010) Zhi Jian Jiang et al.   Journal of Integrative Plant Biology

Genomic Expression Program Involving the Haa1p-Regulon in Saccharomyces cerevisiae Response to Acetic Acid

(2010) Nuno P. Mira et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

The Impact of Climate Change on the World's Marine Ecosystems

(2010) O. Hoegh-Guldberg et al.   SCIENCE

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Vulnerability of marine biodiversity to ocean acidification: A meta-analysis

(2009) I.E. Hendriks et al.   ESTUARINE COASTAL AND SHELF SCIENCE

Transcriptomic response of sea urchin larvae Strongylocentrotus purpuratus to CO2-driven seawater acidification

(2009) A. E. Todgham et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Genomic basis for stimulated respiration by plants growing under elevated carbon dioxide

(2009) A. D. B. Leakey et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Accelerating loss of seagrasses across the globe threatens coastal ecosystems

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

Starch as a major integrator in the regulation of plant growth

(2009) R. Sulpice et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Dr. Zompo: an online data repository for Zostera marina and Posidonia oceanica ESTs

(2009) L. Wissler et al.   Database-The Journal of Biological Databases and Curation

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

(2009) Ben Langmead et al.   GENOME BIOLOGY

Ocean Acidification: The Other CO2Problem

(2008) Scott C. Doney et al.   Annual Review of Marine Science

Associations of concern: declining seagrasses and threatened dependent species

(2008) A Randall Hughes et al.   FRONTIERS IN ECOLOGY AND THE ENVIRONMENT

Comparative Analysis of Expressed Sequence Tag (EST) Libraries in the Seagrass Zostera marina Subjected to Temperature Stress

(2008) Thorsten B. H. Reusch et al.   MARINE BIOTECHNOLOGY

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

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

Volcanic carbon dioxide vents show ecosystem effects of ocean acidification

(2008) Jason M. Hall-Spencer et al.   NATURE

The Universal Protein Resource (UniProt) 2009

(2008)   NUCLEIC ACIDS RESEARCH

Arabidopsistranscript and metabolite profiles: ecotype-specific responses to open-air elevated [CO2]

(2008) PINGHUA LI et al.   PLANT CELL AND ENVIRONMENT

Elevated CO2increases photosynthesis, biomass and productivity, and modifies gene expression in sugarcane

(2008) AMANDA PEREIRA DE SOUZA et al.   PLANT CELL AND ENVIRONMENT

Hinokinin biosynthesis inLinum corymbulosumReichenb.

(2008) Ürün Bayindir et al.   PLANT JOURNAL

Interaction between photosynthesis and respiration in illuminated leaves

(2007) Ko Noguchi et al.   MITOCHONDRION