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HAMAP: Prochlorococcus marinus subsp. pastoris (strain CCMP1986 / MED4) complete proteome

General information

Species:  Prochlorococcus marinus subsp. pastoris (strain CCMP1986 / MED4)
Species code: PROMP
Taxonomy: Bacteria; Cyanobacteria; Prochlorales; Prochlorococcaceae; Prochlorococcus (TaxID: 59919) [NEWT/ NCBI]
Description: Prochlorococcus, a fairly recently discovered cyanobacterium (1988), is the smallest known free-living photosynthetic prokaryote. Despite its small size it contributes significantly to global nutrient cycling. It is unique among cyanobacteria in using divinyl chlorophyll a and b as the major light-harvesting pigments, and harvests light with chlorophyll-binding antenna proteins (Pcb proteins) instead of the phycobilisomes used by most cyanobacteria. It is found in low- to mid-latitude oceans and seas, thriving in nutrient-poor waters and at greater depths than its close relative Synechococcus (down to 135m for Prochlorococcus, but only 95m for Synechococcus). Prochlorococcus can be differentiated into low-light (LL) and high-light (HL)-adapted ecotypes that have different physiologies and exist at different depths. Comparison of 12 whole genomes suggests the core genome contains about 1250 genes, while the pan-genome will have more than 5800 genes.
This HL-adapted strain was isolated from surface waters (5m depth) of the Mediterranean Sea in January 1989. It has chlorophyll b/a ration of 0.20 and belongs to low chlorophyll b/a clade I. It has several synonyms; CCMP1986=MED4=CCMP1378=CC2389.
Properties: Presence of flagella: No
Human pathogen: No
Interaction: No
Number of membranes: 2
Number of inteins:0
Statistics: Number of PROMP entries in the UniProt Knowledgebase: 1942 (374 in UniProtKB/Swiss-Prot + 1568 in UniProtKB/TrEMBL)


Genome(s) sequenced

Strain:    CCMP1986 / MED4
Genome structure:
Chromosome EMBL accession number BX548174 (circular; 1,657,990 bp) (download entry) (download Genome Reviews).
Reference(s):
[1] MEDLINE=22825698; PubMed=12917642; [ NCBI , EBI , Israel , Japan ]
Rocap G., Larimer F.W., Lamerdin J.E., Malfatti S., Chain P., Ahlgren N.A., Arellano A., Coleman M., Hauser L., Hess W.R., Johnson Z.I., Land M.L., Lindell D., Post A.F., Regala W., Shah M., Shaw S.L., Steglich C., Sullivan M.B., Ting C.S., Tolonen A., Webb E.A., Zinser E.R., Chisholm S.W. ;
"Genome divergence in two Prochlorococcus ecotypes reflects oceanic niche differentiation.";
Nature 424:1042-1047(2003).
Web links:
Official genome site(s):
http://genome.jgi-psf.org/finished_microbes/prom4/prom4.home.html
http://chisholmlab.mit.edu/genomes/
Other web sites:
CyanoBase: http://bacteria.kazusa.or.jp/cyanobase/MED4/index.html
Entrez Genome Project: http://www.ncbi.nlm.nih.gov/sites/entrez?Db=genomeprj&Cmd=DetailsSearch&Term=txid59919%5Borgn%5D
Genome Atlas: http://www.cbs.dtu.dk/services/gwBrowser/project.php?pid=213
GIB (DDBJ): http://gib.genes.nig.ac.jp/single/index.php?spid=Pmar_MED4
Karyn's Genomes: http://www.ebi.ac.uk/2can/genomes/bacteria/Prochlorococcus_marinus.html
PEDANT: http://pedant.gsf.de:3345/pedant3htmlview/pedant3view?Method=start_method&Db=p3_p213_Pro_marin
TIGR CMR: http://cmr.tigr.org/tigr-scripts/CMR/GenomePage.cgi?database=ntpm02
 EBI Proteome Analysis page



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