Phaeodactylum tricornutum CCAP 1055/1 chromosome 12, 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 CM000614.\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##
Possibly hydrolyzes 1,3-beta-D-glucosyl residues.; glycosyl hydrolase family 81
H3.3 has few differences but well identified and localised through kingdoms on amino acid level. The H3.3 variant is known not to be S phase specific
DNA polymerase delta catalytic unit; III
iron-sulfur cluster assembly protein IscU; contains putative mitochondrial transit peptide at the N terminus (TargetP score = 0.907); putativeluch targeted to mitochondrion
mitotic checkpoint protein with homology with MAD2
MAD2 is a spindle checkpoint protein which prevents progression of the cell cycle upon detection of a defect in mitotic spindle integrity.
Catalyses the posttranslational formation of 4- hydroxyproline in -xaa-pro-gly-sequences in collagens and other proteins
Hydrolyzes 1,3-beta-D-glucosyl residues.; glycosyl hydrolase family 16
Similar to histone deacetylase 1 protein responsible for the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Also involved in p53 deacetylation which modulates its effect on cell growth and apoptosis
Alanine racemase plays a role in providing the D-alanine required for cell wall biosynthesis by isomerising L-alanine to D-alanine. Proteins contains this domain are found in both prokaryotic and eukaryotic proteins
Catalyzes the synthesis of biotin from dethiobiotin. Biotin is an essential cofactor for enzymes involved in transfer of CO2 during carboxylation, decarboxylation and transcarboxylation reactions.
DNA gyrase B subunit thought to catalyse the ATP-dependent super-coiled of DNA. Highly closed to the Thalassiosira protein thaps1 127079.
Similar to histone H2A core component of nucleosomes, containing two molecules each of H2A, H2B, H3 and H4
Highly expressed gene of unknown function. Contains one transmembrane domain and is homolous to genes from Halothermothrix orenii and Caldicellulosiruptor saccharolyticus, which are each thermophilic members of the firmicutes bacterial group. Has many ESTs under conditions of nitrate stress and in the oval morphotype.; Pt_44368 Gene of unknownn function
regulatory proteasome non-atpase subunit 1
26S proteasome regulatory non ATPase subunit, homolog to animal subunit
delta-3,5-delta-2,4-dienoyl-CoA isomerase
Contains peroxisomal targeting motifs. Converts 3,5-enoyl-CoA to 2,4-enoyl-CoA.
Transducin-like protein; involved in signal transduction
catalyzes supercoiled DNA relaxation. Highly closed to the Thalassiosira proteins thaps1 154715, 172273, 154986.
The MutS homolog 5 (MSH5) interacts with MSH4 to promote cross-over formation during meiotic recombination. Phatr_9232 is closest to Thaps_42476.; MSH5) DNA recombination protein
DNA topoisomerase II that catalyzes supercoiled DNA relaxation. Highly closed to the Thalassiosira proteins thaps1 154986, 172273,154715.
Has EST support; Alternative splicing variant 1
Mre11 pairs with Rad50 (Phatr2_45519) to repair DNA double strand breaks. The Mre11-Rad50 complex functions in DNA repair, telomere maintenance, and meiotic recombination.; Alternative splicing variant 1
MRE11 (homolog 1) Double-strand break repair protein MRE11A; Alternative splicing variant 2
Machado-Joseph disease-like protein. The trinucelotide repeat that characterizes severity of the disease in humans is absent in Phaeo.
udp-n-acetylglucosamine pyrophosphorylase
Catalyses the reaction UTP + N-acetyl-alpha-D-glucosamine 1-phosphate = diphosphate + UDP-N-acetyl-D-glucosamine
imitation switch isoform 1, alias nucleosome remodeling factor 140 kDa subunit
Complexes containing Imitation Switch (ISWI) have been implicated in regulating replication and maintenance of heterochromatin
carboxy-lyase, contains bipartite plastid targeting presequence with conserved motif at signal peptide cleavage site
Catalyses the transformation of 3-hydroxy-3-methylglutaryl-coenzyme A into acetyl-CoA and acetoacetate, with potential roles in ketogenesis (in lipid metabolism), leucine degradation, and mevalonate degradation.
3-oxoacyl-[acyl-carrier-protein] synthase
Catalyzes the condensation reaction of fatty acid synthesis by the addition to an acyl acceptor of two carbons from malonyl-ACP. May prefer short-chain fatty acid substrates. Probably contains bipartite plastid targeting signal as predicted by targetP.; Beta-ketoacyl-ACP synthase II; KAS II