Transcriptomic and proteomic responses of the oceanic diatom Pseudo-nitzschia granii to iron limitation

Iron storage capacities and associated ferritin gene expression among marine diatoms

(2018) Natalie R. Cohen et al.   LIMNOLOGY AND OCEANOGRAPHY

A global ocean atlas of eukaryotic genes

(2018) Quentin Carradec et al.   Nature Communications

Endocytosis-mediated siderophore uptake as a strategy for Fe acquisition in diatoms

(2018) Elena Kazamia et al.   Science Advances

Carbonate-sensitive phytotransferrin controls high-affinity iron uptake in diatoms

(2018) Jeffrey B. McQuaid et al.   NATURE

Development of a molecular-based index for assessing iron status in bloom-forming pennate diatoms

(2017) Adrian Marchetti et al.   JOURNAL OF PHYCOLOGY

Iron and vitamin interactions in marine diatom isolates and natural assemblages of the Northeast Pacific Ocean

(2017) Natalie R. Cohen et al.   LIMNOLOGY AND OCEANOGRAPHY

Evolutionary genomics of the cold-adapted diatom Fragilariopsis cylindrus

(2017) Thomas Mock et al.   NATURE

The role of intraspecific variation in the ecological and evolutionary success of diatoms in changing environments

(2017) Anna Godhe et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Cobalamin-independent Methionine Synthase Distribution and Influence on Vitamin B12 Growth Requirements in Marine Diatoms

(2017) Kelsey A. Ellis et al.   PROTIST

Globally Important Haptophyte Algae Use Exogenous Pyrimidine Compounds More Efficiently than Thiamin

(2017) Magdalena A. Gutowska et al.   mBio

Building a locally diploid genome and transcriptome of the diatom Fragilariopsis cylindrus

(2017) Pirita Paajanen et al.   Scientific Data

Microorganisms and ocean global change

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

Contrasting effects of copper limitation on the photosynthetic apparatus in two strains of the open ocean diatom Thalassiosira oceanica

(2017) Anna A. Hippmann et al.   PLoS One

Cyanobacteria and Eukaryotic Algae Use Different Chemical Variants of Vitamin B12

(2016) Katherine Emma Helliwell et al.   CURRENT BIOLOGY

Use of plankton-derived vitamin B1 precursors, especially thiazole-related precursor, by key marine picoeukaryotic phytoplankton

(2016) Ryan W Paerl et al.   ISME Journal

Two distinct pools of B12analogs reveal community interdependencies in the ocean

(2016) Katherine R. Heal et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mechanisms of increased Trichodesmium fitness under iron and phosphorus co-limitation in the present and future ocean

(2016) Nathan G. Walworth et al.   Nature Communications

Methionine synthase interreplacement in diatom cultures and communities: Implications for the persistence of B12use by eukaryotic phytoplankton

(2016) Erin M. Bertrand et al.   LIMNOLOGY AND OCEANOGRAPHY

SeqKit: A Cross-Platform and Ultrafast Toolkit for FASTA/Q File Manipulation

(2016) Wei Shen et al.   PLoS One

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

(2015) Felipe A. Simão et al.   BIOINFORMATICS

A Novel Protein, Ubiquitous in Marine Phytoplankton, Concentrates Iron at the Cell Surface and Facilitates Uptake

(2015) Joe Morrissey et al.   CURRENT BIOLOGY

Metatranscriptomes reveal functional variation in diatom communities from the Antarctic Peninsula

(2015) Gareth A Pearson et al.   ISME Journal

Marine diatom proteorhodopsins and their potential role in coping with low iron availability

(2015) Adrian Marchetti et al.   ISME Journal

The Phyre2 web portal for protein modeling, prediction and analysis

(2015) Lawrence A Kelley et al.   Nature Protocols

Identification of protein coding regions in RNA transcripts

(2015) Shiyuyun Tang et al.   NUCLEIC ACIDS RESEARCH

2016 update of the PRIDE database and its related tools

(2015) Juan Antonio Vizcaíno et al.   NUCLEIC ACIDS RESEARCH

Phytoplankton–bacterial interactions mediate micronutrient colimitation at the coastal Antarctic sea ice edge

(2015) Erin M. Bertrand et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Divergent responses of Atlantic coastal and oceanicSynechococcusto iron limitation

(2015) Katherine R. M. Mackey et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Functional group-specific traits drive phytoplankton dynamics in the oligotrophic ocean

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

Diversity and Evolutionary History of Iron Metabolism Genes in Diatoms

(2015) Ryan D. Groussman et al.   PLoS One

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Genetic indicators of iron limitation in wild populations of Thalassiosira oceanica from the northeast Pacific Ocean

(2014) P Dreux Chappell et al.   ISME Journal

Alternatives to vitamin B1 uptake revealed with discovery of riboswitches in multiple marine eukaryotic lineages

(2014) Darcy McRose et al.   ISME Journal

Cellular Responses Associated with ROS Production and Cell Fate Decision in Early Stress Response to Iron Limitation in the Diatom Thalassiosira pseudonana

(2014) Chun-Shan Luo et al.   JOURNAL OF PROTEOME RESEARCH

Multiple nutrient stresses at intersecting Pacific Ocean biomes detected by protein biomarkers

(2014) M. A. Saito et al.   SCIENCE

RNA-Seq data: a goldmine for organelle research

(2013) D. R. Smith   Briefings in Functional Genomics

Overexpression of Ferredoxin, PETF, Enhances Tolerance to Heat Stress in Chlamydomonas reinhardtii

(2013) Yi-Hsien Lin et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Possible impacts of volcanic ash emissions of Mount Etna on the primary productivity in the oligotrophic Mediterranean Sea: Results from nutrient-release experiments in seawater

(2013) Nazlı Olgun et al.   MARINE CHEMISTRY

Diatom Proteomics Reveals Unique Acclimation Strategies to Mitigate Fe Limitation

(2013) Brook L. Nunn et al.   PLoS One

Examining strategies to facilitate vitamin B1 biofortification of plants by genetic engineering

(2013) Lucille Pourcel et al.   Frontiers in Plant Science

Iron-light interactions differ in Southern Ocean phytoplankton

(2012) Robert F. Strzepek et al.   LIMNOLOGY AND OCEANOGRAPHY

Platform-independent and Label-free Quantitation of Proteomic Data Using MS1 Extracted Ion Chromatograms in Skyline

(2012) Birgit Schilling et al.   MOLECULAR & CELLULAR PROTEOMICS

Deep carbon export from a Southern Ocean iron-fertilized diatom bloom

(2012) Victor Smetacek et al.   NATURE

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Pseudo-nitzschia (Bacillariophyceae) species, domoic acid and amnesic shellfish poisoning: revisiting previous paradigms

(2012) Aurélie Lelong et al.   PHYCOLOGIA

Plant type ferredoxins and ferredoxin-dependent metabolism

(2012) GUY HANKE et al.   PLANT CELL AND ENVIRONMENT

The Transcriptome and Proteome of the Diatom Thalassiosira pseudonana Reveal a Diverse Phosphorus Stress Response

(2012) Sonya T. Dyhrman et al.   PLoS One

Comparative metatranscriptomics identifies molecular bases for the physiological responses of phytoplankton to varying iron availability

(2012) A. Marchetti et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Influence of cobalamin scarcity on diatom molecular physiology and identification of a cobalamin acquisition protein

(2012) E. M. Bertrand et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome and low-iron response of an oceanic diatom adapted to chronic iron limitation

(2012) Markus Lommer et al.   GENOME BIOLOGY

The Role of B Vitamins in Marine Biogeochemistry

(2011) Sergio A. Sañudo-Wilhelmy et al.   Annual Review of Marine Science

VennDiagram: a package for the generation of highly-customizable Venn and Euler diagrams in R

(2011) Hanbo Chen et al.   BMC BIOINFORMATICS

Structural basis of fumarate hydratase deficiency

(2011) Sarah Picaud et al.   JOURNAL OF INHERITED METABOLIC DISEASE

Evolution and Functional Diversification of Fructose Bisphosphate Aldolase Genes in Photosynthetic Marine Diatoms

(2011) Andrew E. Allen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Evolution and metabolic significance of the urea cycle in photosynthetic diatoms

(2011) Andrew E. Allen et al.   NATURE

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

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

The Response of Diatom Central Carbon Metabolism to Nitrogen Starvation Is Different from That of Green Algae and Higher Plants

(2011) N. L. Hockin et al.   PLANT PHYSIOLOGY

Characterization of Putative Iron Responsive Genes as Species-Specific Indicators of Iron Stress in Thalassiosiroid Diatoms

(2011) LeAnn P. Whitney et al.   Frontiers in Microbiology

Iron Limitation of a Springtime Bacterial and Phytoplankton Community in the Ross Sea: Implications for Vitamin B12 Nutrition

(2011) Erin M. Bertrand et al.   Frontiers in Microbiology

Photophysiology in Two Major Southern Ocean Phytoplankton Taxa: Photosynthesis and Growth of Phaeocystis antarctica and Fragilariopsis cylindrus under Different Irradiance Levels

(2010) K. R. Arrigo et al.   INTEGRATIVE AND COMPARATIVE BIOLOGY

Unveiling a phytoplankton hotspot at a narrow boundary between coastal and offshore waters

(2010) F. Ribalet et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Most harmful algal bloom species are vitamin B1 and B12 auxotrophs

(2010) Y. Z. Tang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

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

The continental margin is a key source of iron to the HNLC North Pacific Ocean

(2008) Phoebe J. Lam et al.   GEOPHYSICAL RESEARCH LETTERS

Ferritin is used for iron storage in bloom-forming marine pennate diatoms

(2008) Adrian Marchetti et al.   NATURE

Whole-cell response of the pennate diatom Phaeodactylum tricornutum to iron starvation

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

The PsaE subunit of photosystem I prevents light-induced formation of reduced oxygen species in the cyanobacterium Synechocystis sp. PCC 6803

(2007) Robert Jeanjean et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS