Phaeodactylum tricornutum CCAP 1055/1 chromosome 17, whole genome shotgun sequence.
Eukaryota; Stramenopiles; Bacillariophyta; Bacillariophyceae; Bacillariophycidae; Naviculales; Phaeodactylaceae; Phaeodactylum.
The Phaeodactylum genome reveals the evolutionary history of diatom genomes
Submitted (15-JUN-2017) National Center for Biotechnology Information, NIH, Bethesda, MD 20894, USA
Submitted (12-AUG-2008) US DOE Joint Genome Institute, 2800 Mitchell Drive B100, Walnut Creek, CA 94598-1698, USA
PROVISIONAL REFSEQ: This record has not yet been subject to final\nNCBI review. The reference sequence is identical to CM000619.\nURL -- http://www.jgi.doe.gov/phaeodactylum\nJGI Project ID: 3634397\nContacts: Chris Bowler (cbowler@biologie.ens.fr)\n Igor Grigoriev (ivgrigoriev@lbl.gov)\nThe clone of P. tricornutum that was sequenced is CCAP1055/1 and is\navailable from the Culture collection of Algae and Protozoa\n(http://www.ccap.ac.uk). This clone represents a monoclonal culture\nderived from a fusiform cell in May 2003 from strain CCCP632, which\nwas originally isolated in 1956 off Blackpool (U.K.). It has been\nmaintained in culture continuously in F/2 medium.\nAnnotation was done by the JGI Annotation team and the Diatom\nConsortium.\nChromosomes 3 and 11 are complete and present in GenBank records\nCP001142 and CP001141, respectively.\nThe JGI and collaborators endorse the principles for the\ndistribution and use of large scale sequencing data adopted by the\nlarger genome sequencing community and urge users of this data to\nfollow them. It is our intention to publish the work of this\nproject in a timely fashion and we welcome collaborative\ninteraction on the project and analysis.\n(http://www.genome.gov/page.cfm?pageID=10506376)\nAnnotated scaffolds were added in December 2008.\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: INSDC submitter\nAnnotation Status :: Full annotation\nAnnotation Pipeline :: Eukaryotic Annotation Propagation Pipeline\n##Genome-Annotation-Data-END##
protein fucoxanthin chlorophyll a/c protein
Prokaryotic type glutamine synthase III. Responsible for incorproating NH4 into glutamine. Many ESTs under conditions of nitrate limitation. TargetP predicts that this gene is targeted to the mitochondria.
delta 6 fatty acid desaturase, membrane bound, di-iron oxidoreductase, containing three 'histidine box' motifs and a cytochrome b5 fusion domain. Similar to metazoan delta 6 desaturases. Involved in the biosynthesis of eicosapentaenoic and docasahexaenoic acids. When expressed in yeast, mediates the desaturation of exogenous free fatty acids. Probably prefers endogenous acyl-lipids as substrates.
Ubiquitin-protein ligase, member of the cullin family, homolog to plant CUL3
glutamine-fructose-6-phosphate transaminase
In the pathway towards N-acetylglucosamine synthesis, catalyzes the reaction: L-glutamine + D-fructose 6-phosphate = L-glutamate + D-glucosamine 6-phosphate.; isomerizing
Probably involved in Nucleotide Excision Repair (NER)
Putative peroxiredoxin or similar antioxidant protein; contains signal peptide and alkyl hydroperoxide reductase -like domain (AhpC); AhpC is responsible for directly reducing organic hyperoxides in its reduced dithiol form. Thiol specific antioxidant (TSA) is a physiologically important antioxidant which constitutes an enzymatic defense against sulphur-containing radicals. This family contains AhpC and TSA, as well as related proteins.
unknown function; putative element of multiprotein complex; contains von Willebrand factor, type A; similarity to zinc finger proteins; unknownn protein
unknown function; secretory pathway; unknownn protein
Type II DNA topoisomerase 6 is composed of subunits A and B. Subunit A forms double-strand DNA breaks and sub-unit B contains the ATP-binding site. In Arabidopsis thaliana, topoisomerase 6B interacts with AtSpo11-3, a topoisomerase 6A (spo11) homolog and is essential for normal growth and development.The TOP6B protein is expected to interact with TOP6A, which is also present in diatoms (Phatr2_24838).
pyruvate kinase 1, similar to GenBank AY608677, but N-terminus differs due to frameshift between Phatr2 and AY608677, contains bipartite plastid targeting presequence with conserved motif at signal peptide cleavage site
RabGAP domain expressed protein of unknown function
Catalases are antioxidant enzymes that catalyse the conversion of hydrogen peroxide to water and molecular oxygen. EST support only from stress conditions as oval morphotype, Fe-limit or decadienal treatment. T. pseudonana is lacking this type of catalase and instead it has the bifunctional haem-containing peroxidase/catalases which is also present in P.tricornutum.
RabGAP/TBC domain protein of unknown function, expressed
Phosphoenolpyruvate carboxylase with a predicted signal peptide at N-terminal end of protein.
precursor of desaturase omega-6 desaturase
membrane bound, di-iron oxidoreductase, containing three 'histidine box' motifs. Similar to omega-6 desaturases. Probably involved in the biosynthesis of eicosapentaenoic and docasahexaenoic acids.
Similar to bacterial and plastidic nucleotide transporters (NTTs)
A number of pyridoxal-dependent enzymes involved in the metabolism of cysteine, homocysteine and methionine have been shown to be evolutionary related. These enzymes are proteins of about 400 amino-acid residues; CBL; Beta-cystathionase; Cysteine lyase
separase is required for sister chromatid separation
channel voltage activated chloride channel
Has conserved features of animal voltage activated ion channel CLC7 group. 10-12 TM domains and C terminus also has 2 CBS binding domains typical of these channels. Phylogenetic analysis of putative AA clusters along with T. pseudonana CLC7 ortholog in animal CLC7 group.
delta5 fatty acid desaturase, membrane bound, di-iron oxidoreductase, containing three 'histidine box' motifs and a cytochrome b5 fusion domain. Involved in the biosynthesis of eicosapentaenoic and docasahexaenoic acids. When expressed in yeast, mediates the desaturation of exogenous free fatty acids. Probably prefers endogenous acyl-lipids as substrates.
eighth step of heme synthesis; although the enzyme is related to chloroplast homologues, no targeting sequences have been found
WD40 and KH repeats, homolog to Anopheles PAF
cysteine synthase, eukaryotic gene, which contains N terminal putative ER signal peptide (SignalP score= 0.923); putatively chloroplast targeted