Thalassiosira pseudonana CCMP1335 chromosome 24, whole genome shotgun sequence.
Eukaryota; Stramenopiles; Bacillariophyta; Coscinodiscophyceae; Thalassiosirophycidae; Thalassiosirales; Thalassiosiraceae; Thalassiosira.
The Phaeodactylum genome reveals the evolutionary history of diatom genomes
The genome of the diatom Thalassiosira pseudonana: ecology, evolution, and metabolism
Submitted (15-JUN-2017) National Center for Biotechnology Information, NIH, Bethesda, MD 20894, USA
Submitted (18-SEP-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 CM000655.\nURL -- http://www.jgi.doe.gov/thalassiosira\nJGI Project ID: 2662235\nContacts: E. Virginia Armbrust (armbrust@u.washington.edu)\n Igor Grigoriev (ivgrigoriev@lbl.gov)\nThe clone of P. pseudonana that was sequenced is CCMP1335 and is\navailable from the Center for Culture of Marine Phytoplankton\n(http://ccmp.bigelow.org). This clone was collected in 1958 from\nMoriches Bay (Long Island, New York) and has been maintained\ncontinuously in culture.\nAnnotation was done by the JGI Annotation team and the Diatom\nConsortium.\nChromosomes 7 and 18 are complete and present in GenBank records\nCP001160 and CP001159, 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 January 2009.\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##
contains a calcium-binding EF hand; supported by cDNAs; protein of unknown function with partial similarity to calmodulin
GS isoform GS III, ammonium assimilation-N utilizationIdentified based on similarity to other GS III even thugh these are prokaryotic. Some homology with partial fragments for GS III in other diatoms in NCBI(AF 251001, 251002, 251003); GLNN
similar to TIM9, translocase of inner mitochndrial membrane
Contains homology to mitochondrial/peroxisomal membrane carrier proteins
supported by cDNAs; putative protein of unknown function containing a f-box domain
in addition to CASEY annotation: N-terminus contains putative ER signal peptide predicted by SignalP (probability 0.987; cleavage site between pos. 19 and 20: TSA-FT) followed by putative chloroplast transit peptide predicted by TargetP (probability 0.709; length 19 aa). Putatively chloroplast targeted.
Good EST evidence and several hits to this gene from other organisms.
Pyridine nucleotide biosynthesis; Oxidoreductase; Flavoprotein; BLAST search using model showed highest similarity to L-aspartate oxidase from the gamma proteobacteria Yersinis pestis.
putative protein apoptosis gene MA3, Suberites domuncula, Y15421; gi_17063162_gb_AY062102.1_ (model%: 97, hit%: 46, score: 466, %id: 36) [Arabidopsis thaliana]; EST support; putative protein similar to apoptotic protein MA3
Some similarity to heat shock protein homologs from other organisms. Contains similarity to Pfam model #PF00515 for TPR domain repeat. Also contains InterPro domain #IPR001440, which is a TPR repeat domain, and #IPR001023, which is characteristic of members of the heat shock protein hsp70 family.
Good similarity to known sequences. Nearly complete cDNA support.
putative protein with internal repeat structure and integrin-like domains; putative protein with integrin-like domains