The Genome of the Diatom Thalassiosira Pseudonana: Ecology, Evolution, and Metabolism

  title={The Genome of the Diatom Thalassiosira Pseudonana: Ecology, Evolution, and Metabolism},
  author={E. Virginia Armbrust and John A. Berges and Chris Bowler and Beverley R. Green and Diego Martínez and Nicholas H. Putnam and Shiguo Zhou and Andrew Ellis Allen and Kirk E. Apt and Michael Bechner and Mark A Brzezinski and Balbir Kaur Chaal and Anthony Chiovitti and Aubrey K. Davis and Mark S. Demarest and John C. Detter and Tijana Glavina and David Goodstein and Masood Z. Hadi and Uffe Hellsten and Mark Hildebrand and Bethany D. Jenkins and Jerzy Jurka and Vladimir V. Kapitonov and Nils Kr{\"o}ger and W W Y Lau and Todd W. Lane and Frank W. Larimer and James Casey Lippmeier and Susan M. Lucas and M{\'o}nica Medina and Anton Montsant and Miroslav Oborn{\'i}k and Micaela S. Parker and Brian Palenik and Gregory J. Pazour and Paul Richardson and Tatiana A. Rynearson and Mak A. Saito and David C. Schwartz and Kimberlee Thamatrakoln and Klaus Ulrich Valentin and Assaf Vardi and Frances P. Wilkerson and Daniel S. Rokhsar},
  pages={79 - 86}
Diatoms are unicellular algae with plastids acquired by secondary endosymbiosis. They are responsible for ∼20% of global carbon fixation. We report the 34 million–base pair draft nuclear genome of the marine diatom Thalassiosira pseudonana and its 129 thousand–base pair plastid and 44 thousand–base pair mitochondrial genomes. Sequence and optical restriction mapping revealed 24 diploid nuclear chromosomes. We identified novel genes for silicic acid transport and formation of silica-based cell… 

Phylogenetic aspects of the sulfate assimilation genes from Thalassiosira pseudonana

To obtain an insight into the localization and organization of the sulfur metabolism pathways, the genome of Thalassiosira pseudonana—a model organism for diatom research—might help to understand the fundamental questions on adaptive responses of diatoms to dynamic environmental conditions such as nutrient availability in a broader context.

Recent progress in diatom genomics and epigenomics.

Oceanographic and biogeochemical insights from diatom genomes.

It is shown how genome-enabled approaches are being leveraged to explore major phenomena of oceanographic and biogeochemical relevance, such as nutrient assimilation and life histories in diatoms.

Genome evolution of a nonparasitic secondary heterotroph, the diatom Nitzschia putrida

Comparative analyses with photosynthetic diatoms and heterotrophic algae with parasitic lifestyle revealed that a combination of gene loss, the accumulation of genes involved in organic carbon degradation, a unique secretome, and the rapid divergence of conserved gene families involved in cell wall and extracellular metabolism appear to have facilitated the lifestyle of a free-living secondary heterotroph.

Genome evolution of a non-parasitic secondary heterotroph, the diatom Nitzschia putrida

Comparative analyses with photosynthetic diatoms revealed that a combination of genes loss, the horizontal acquisition of genes involved in organic carbon degradation, a unique secretome and the rapid divergence of conserved gene families involved in cell wall and extracellular metabolism appear to have facilitated the lifestyle of a non-parasitic, free-living secondary heterotroph.

Prospects in diatom research.


The basic cellular systems controlling cell signaling, gene expression, cytoskeletal structures, and response to stress have been cataloged in an attempt to obtain a global view of the molecular foundations that sustain such an ecologically successful group of organisms.

Targeting of proteins to the cell wall of the diatom Thalassiosira pseudonana

The cell wall proteins of diatoms are reviewed, with a focus on the species Thalassiosira pseudonana, to report on the expression patterns of these proteins in synchronized cultures, as well as their modifications and intracellular targeting.

Molecular Tools for Discovering the Secrets of Diatoms

This work highlights recent developments in the whole-genome sequencing of Thalassiosira pseudonana and Phaeodactylum tricornutum, and illustrates how they are being used to understand different aspects of diatom biology.

Gamma carbonic anhydrases are subunits of the mitochondrial complex I of diatoms

This work experimentally shows that mitochondrial complex I in diatoms is a large complex containing gamma type CA subunits, supporting an ancestral origin and proposes a complex I integrated CA domain with heterotrimeric subunit composition.



The genome of a motile marine Synechococcus

The genome of WH8102 seems to have been greatly influenced by horizontal gene transfer, partially through phages, and is more of a generalist than two related marine cyanobacteria.

Revealing the molecular secrets of marine diatoms.

Making diatoms accessible to genomics technologies will potentiate greatly efforts to understand the molecular and cellular basis of bioinorganic pattern formation of their cell walls and for elucidating key aspects of diatom ecophysiology.

The highly reduced genome of an enslaved algal nucleus

Complete sequences for all three nucleomorph chromosomes from the cryptomonad Guillardia theta are reported, offering a means for studying eukaryotic chromosome replication, segregation and evolution.

Unicellular C4 photosynthesis in a marine diatom

Evidence is presented that C4 photosynthesis supports carbon assimilation in the marine diatom Thalassiosira weissflogii, thus providing a biochemical explanation for CO2-insensitive photosynthesis in marine diatoms.

The species concept in diatoms

  • D. Mann
  • Environmental Science, Geography
  • 1999
Abstract Diatoms are the most species-rich group of algae. They are ecologically widespread and have global significance in the carbon and silicon cycles, and are used increasingly in ecological

The Draft Genome of Ciona intestinalis: Insights into Chordate and Vertebrate Origins

A draft of the protein-coding portion of the genome of the most studied ascidian, Ciona intestinalis, is generated, suggesting that ascidians contain the basic ancestral complement of genes involved in cell signaling and development.

Gene transfer from organelles to the nucleus: Frequent and in big chunks

  • W. Martin
  • Biology
    Proceedings of the National Academy of Sciences of the United States of America
  • 2003
Gene transfer from the tobacco chloroplast genome to nuclear chromosomes under laboratory conditions is reported, opening up new chapters in the understanding of organelle–nuclear DNA dynamics and have far-reaching evolutionary implications.

The Evolution of Modern Eukaryotic Phytoplankton

The geological, geochemical, and biological processes that contributed to the rise of the dinoflagellates, coccolithophores, and diatoms all contain plastids derived from an ancestral red alga by secondary symbiosis are examined.