ArticlePlant physiology2005
Comparative genomics of the pennate diatom Phaeodactylum tricornutum.
Article in Plant physiology, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 39 papers, 1 of them a synthesis that pooled it.
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Who cites it
39 citing papers in PubMed, 1 synthesis or guideline pooled it, 127 citations in OpenAlex.
- Meta-analysis of RNA-Seq datasets allows a better understanding of P. tricornutum cellular biology, a requirement to improve the production of Biologics.Scientific reports · 2025Pooled it
- Confronting Physical, Chemical and Temporal Biases in Experimental Algal Biology.International journal of molecular sciences · 2026Review
- Characterization of the VOC Promoter That Is Active Under Low-Salinity Conditions in the DiatomMarine drugs · 2025Article
- Comparative RNA-Seq of TenMarine drugs · 2024Article
- Proteomic and biochemical responses to different concentrations of COBiotechnology for biofuels · 2021Article
- Article
- Review
- Comparative in depth RNA sequencing of P. tricornutum's morphotypes reveals specific features of the oval morphotype.Scientific reports · 2018Article
- 3-Hydroxyisobutyryl-CoA hydrolase involved in isoleucine catabolism regulates triacylglycerol accumulation inPhilosophical transactions of the Royal Society of London. Series B, Biological sciences · 2017Article
- Dynamic responses to silicon in Thalasiossira pseudonana - Identification, characterisation and classification of signature genes and their corresponding protein motifs.Scientific reports · 2017Article
- Aquatic Plant Genomics: Advances, Applications, and Prospects.International journal of genomics · 2017Review
- Chitinase producing bacteria with direct algicidal activity on marine diatoms.Scientific reports · 2016Article
- Localization of putative carbonic anhydrases in the marine diatom, Thalassiosira pseudonana.Photosynthesis research · 2014Article
- A rare Phaeodactylum tricornutum cruciform morphotype: culture conditions, transformation and unique fatty acid characteristics.PloS one · 2014Article
- Assembly of eukaryotic algal chromosomes in yeast.Journal of biological engineering · 2013Article
- Foreign gene recruitment to the fatty acid biosynthesis pathway in diatoms.Mobile genetic elements · 2013Article
- Blue light is essential for high light acclimation and photoprotection in the diatom Phaeodactylum tricornutum.Journal of experimental botany · 2013Article
- Molecular dynamics of the diatom thylakoid membrane under different light conditions.Photosynthesis research · 2012Review
- Evidence of coexistence of C₃ and C₄ photosynthetic pathways in a green-tide-forming alga, Ulva prolifera.PloS one · 2012Article
- Evolution and functional diversification of fructose bisphosphate aldolase genes in photosynthetic marine diatoms.Molecular biology and evolution · 2012Article
Corrections and comments
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Authors and funding
4 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Diatoms are one of the most important constituents of phytoplankton communities in aquatic environments, but in spite of this, only recently have large-scale diatom-sequencing projects been undertaken. With the genome of the centric species Thalassiosira pseudonana available since mid-2004, accumulating sequence information for a pennate model species appears a natural subsequent aim. We have generated over 12,000 expressed sequence tags (ESTs) from the pennate diatom Phaeodactylum tricornutum, and upon assembly into a nonredundant set, 5,108 sequences were obtained. Significant similarity (E < 1E-04) to entries in the GenBank nonredundant protein database, the COG profile database, and the Pfam protein domains database were detected, respectively, in 45.0%, 21.5%, and 37.1% of the nonredundant collection of sequences. This information was employed to functionally annotate the P. tricornutum nonredundant set and to create an internet-accessible queryable diatom EST database. The nonredundant collection was then compared to the putative complete proteomes of the green alga Chlamydomonas reinhardtii, the red alga Cyanidioschyzon merolae, and the centric diatom T. pseudonana. A number of intriguing differences were identified between the pennate and the centric diatoms concerning activities of relevance for general cell metabolism, e.g. genes involved in carbon-concentrating mechanisms, cytosolic acetyl-Coenzyme A production, and fructose-1,6-bisphosphate metabolism. Finally, codon usage and utilization of C and G relative to gene expression (as measured by EST redundance) were studied, and preferences for utilization of C and CpG doublets were noted among the P. tricornutum EST coding sequences.
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