Home Proteomes Families Hamap-Scan Documents Downloads Links
HAMAP: Pseudoalteromonas haloplanktis (strain TAC 125) complete proteome
General information

Species:  Pseudoalteromonas haloplanktis (strain TAC 125)
Species code: PSEHT
Taxonomy: Bacteria; Proteobacteria; Gammaproteobacteria; Alteromonadales; Pseudoalteromonadaceae; Pseudoalteromonas (TaxID: 326442) [NEWT/ NCBI]
Description: Pseudoalteromonas haloplanktis TAC125 is a fast growing gammaproteobacterium isolated from an Antarctic coastal sea water sample collected near the French Antarctic station Dumont d'Urville, Terre Adelie. It harbors two chromosomes. The second one does not display a standard GC skew. It is probably due to an unidirectional replication and this is supported by the signature of R1 plasmid replication. A third of the genes of chromosome II have orthologs in E.coli and nineteen percent show high similarities with plasmid-encoded genes. This suggests that this replicon was a plasmid recruited to become a chromosome. rRNA sequences place TAC125 near vibrios and Shewanella. Likewise, the quite high number of tRNA genes (106 genes) is a feature found in Vibrios and P.profundum. Seventy-two percent of the tRNA genes are located in the leading strand. The large number of tRNA and rRNA genes may ensure a fast growth despite the reduced speed of transcription/translation at low temperature. The RNA/nucleoid-associated cold-shock gene hns, which is ubiquitous in gammaproteobacteria, is absent. P.haloplanktis has to cope with increased oxygen solubility and interaction with reduced iron that leads to the deleterious Fenton reaction and reactive oxygen species (ROS). Using directly dioxygen is a way to protect the metabolism against those effects and numerous putative dioxygenases have been identified. Another sign that it is well equipped to deal with problems posed by ROS is the presence of several proteins involved in scavenging the chemical groups affected. It is unable to grow on glucose. Type II secretion system and TAT system are functional but type III secretion system is absent.
Properties: Presence of flagella: Yes
Human pathogen: No
Interaction: No
Number of membranes: 2
Number of inteins:0
Statistics: Number of PSEHT entries in the UniProt Knowledgebase: 3484 (443 in UniProtKB/Swiss-Prot + 3041 in UniProtKB/TrEMBL)


Genome(s) sequenced

Strain:    TAC 125
Genome structure:
• Chromosome I EMBL accession number CR954246 (circular; 3,214,944 bp) (download entry)
• Chromosome II EMBL accession number CR954247 (circular; 635,328 bp) (download entry)
Reference(s):
[1] PubMed=16169927; [ NCBI , EBI , Israel , Japan ]
Medigue C., Krin E., Pascal G., Barbe V., Bernsel A., Bertin P.N., Cheung F., Cruveiller S., D'Amico S., Duilio A., Fang G., Feller G., Ho C., Mangenot S., Marino G., Nilsson J., Parrilli E., Rocha E.P.C., Rouy Z., Sekowska A., Tutino M.L., Vallenet D., von Heijne G., Danchin A. ;
"Coping with cold: the genome of the versatile marine Antarctica bacterium Pseudoalteromonas haloplanktis TAC125.";
Genome Res. 15:1325-1335(2005).
Web links:
CBS: http://www.cbs.dtu.dk/services/GenomeAtlas/show-genus.php?kingdom=Bacteria&GLgenus=Pseudoalteromonas&GLspecies=haloplanktis&GLstrain=TAC125
Entrez Genome Project: http://www.ncbi.nlm.nih.gov/sites/entrez?Db=genomeprj&Cmd=DetailsSearch&Term=txid326442%5Borgn%5D
GenoList: http://bioinfo.hku.hk/GenoList/index.pl?database=psychrolist
GIB (DDBJ): http://gib.genes.nig.ac.jp/single/index.php?spid=Phal_TAC125
JVCI CMR: http://cmr.jcvi.org/tigr-scripts/CMR/GenomePage.cgi?database=ntph02
PEDANT: http://pedant.gsf.de/pedant3htmlview/pedant3view?Method=analysis&Db=p3_p15713_Pse_halop
 EBI Proteome Analysis page



Tools