Phaeodactylum tricornutum CCAP 1055/1 chromosome 22, 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 CM000624.\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##
phytochrome like protein, two component system histidine kinase
DNA replication factor C subunit RFC2 highly closed to the Thalassiosira protein thaps1 14250.
Rad51 is the eukaryotic homolog of RecA and is involved in homology searching and strand exchange in homologous recombination during DNA repair and meiosis. Phatr_40092 is closest to the Thalassiosira pseudonana protein Thaps3_ 2935. Both have homology to Rad51 in animals, plants, and yeasts but with relatively low scores (300 or less). The predicted protein sequence has homology in the conserved Walker A and B motifs. The Interpro scan predicts that it is a member of the RecA family and the P loop ATPase domain. This gene has EST support under 'nitrate depleted' conditions. It might be expected to be up-regulated during meiosis.
phosphatase. Close to 4-nitrophenylphosphatase & phosphoglycolate phosphatase
Probably an oxygen-dependent oxidoreductase utilizing covalently bound FAD co-factor, possibly catalyzes the reaction: lactate + NAD+ = pyruvate + NADH.
Precise function unknown. Contains N-terminal targeting peptide and ankyrin domain proximal to C-terminus.; Ankyrin-repeat-containing gene of unknownn function
nucleoside-diphosphate-sugar epimerases-like protein
Nucleoside-diphosphate-sugar epimerases . Possibly involved in cell envelope biogenesis, outer membrane / carbohydrate transport and metabolism
SMC proteins family form heterodimer and act as essential regulator of chromosome condensation. Highly closed to the Thalassiosira protein thaps1 128421.
protein containing a MCM doamin found in DNA-dependent APTases required for the initiaition of eukariotic DNA replication. Highly closed to the protein of Thalassiosira thaps1 122857
T-phage type, single subunit; Alternative splicing variant 1
DNA-directed RNA polymerase, bacteriophage type; although this enzyme is usually used in plastid or mitochondrion, I have not found any targeting presequences at the N terminus; Alternative splicing variant 2
multi antimicrobial extrusion family protein
Hypothetical protein. Appears to be a member of the Multi Antimicrobial Extrusion (MATE) family which functions as drug/sodium antiporters. These proteins mediate resistance to a wide range of cationic dyes, fluroquinolones, aminoglycosides and other structurally diverse antibodies and drugs. MATE proteins are found in bacteria, archaea and eukaryotes.
Possibly gluconolactonase (a hydrolase acting on ester bonds) catalyzing the reaction: D-glucono-1,5-lactone + H2O = D-gluconate.
Photosystem II subunit M, contains plastid targeting sequence
homolog to plant Ub-like activating enzyme
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. The pyridoxal-P group is attached to a lysine residue located in the central section of these enzymes; Gamma-cystathionase
Probably galactonolactone dehydrogenase (an oxidoreductase utilizing CH-CH bonds as donors and cytochrome acceptors) catalyzing the reaction L-galactono-1,4-lactone + 2 ferricytochrome c = L-ascorbate + 2 ferrocytochrome c.
Plastidial ATP/ADP translocator. Has signal peptide with proposed cleavage site: TEA-FA. ChloroP positive.
delta coatomer, subunit of the Coat Protein complex COP I
kinesin-related protein 2 homolog p27 kip1
ferredoxin-dependent glutamate synthase, fusion of large and small subunits
involved in synthesis of glutamate; contrary to the Thaps homologue, this one seems to lack N terminal presequences for chloroplast targeting