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Topic: Pelagibacter

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	MBARI - Pelagibacter ubique: A perfect engineering solution?
		Pelagibacter ubique is arguably the most abundant organism in seawater, where it accounts for approximately 25% of all microbial plankton cells. During summer periods it may exceed 50% of the cells in the surface waters of temperate ocean gyres.
		Liquid chromatography and tandem mass spectrometry were used to prove that the Pelagibacter PR gene is expressed in culture and that an identical protein is abundant in coastal Oregon seawater.
		Pelagibacter ubique is the first cultured bacterial isolate to exhibit the PR genes discovered by Bejá, Delong, and coworkers, and the only experimental choice at present for understanding how light-dependent proton pumps influence the efficiency of dissolved organic carbon (DOC) assimilation by heterotrophic bacteria in the ocean surface.
	www.mbari.org /seminars/2005/spring2005/april15_giovannoni.htm (432 words)

	Pelagibacter ubique (Site not responding. Last check: 2007-10-15)
		''Pelagibacter ubique is possibly the most numerous bacterium in the world.
		Pelagibacter ubique, a bacterioplankton, has a world-wide distribution and dwells in the ocean surface.
		It's one of the smallest self-replicating cells known with a 0.12 to 0.20 µm diameter.
	www.encyclopedia-1.com /p/pe/pelagibacter_ubique.html (114 words)

	Pelagibacter ubique - Wikipedia, the free encyclopedia
		The bacteria resonsible were isolated in 2002 and given a specific name, although it has not yet been validly published according to the bacteriological code.
		Pelagibacter has a world-wide distribution and is found among the bacterioplankton.
		They are some of the smallest self-replicating cells known, with a diameter of only 0.12-0.20 µm.
	en.wikipedia.org /wiki/Pelagibacter_ubique (244 words)

	WorldChanging: Tools, Models and Ideas for Building a Bright Green Future: Genetic Efficiency and the Carbon Cycle
		Pelagibacter ubique only does what it must to survive: eat.
		Pelagibacter feeds off dead organic matter that is dissolved in ocean water - lead researcher Stephen Giovannoni of Oregon State University likens it to a very thin chicken soup.The dissolved carbon is always there, so there is no need to build in special metabolic circuits to adjust between periods of feast and famine.
		Pelagibacter ubique's role in the carbon cycle is only now becoming clear.
	www.worldchanging.com /archives/003334.html (470 words)

	DOE Genomes to Life Contractor-Grantee Workshop 2005
		The alphaproteobacterium SAR11, now known as Pelagibacter ubique, is arguably the most abundant organism in the oceans, where it accounts for approximately 25% of all microbial plankton cells.
		Pelagibacter plays a key role in the oxidation of the oceanic dissolved organic carbon pool, which is approximately equivalent in size to the atmospheric carbon dioxide pool.
		The Pelagibacter genome is almost exactly the size of the genomes of the obligate intracellular parasites R.
	doegenomestolife.org /pubs/2005abstracts/html/file71.shtml (473 words)

	BBC NEWS \| Science/Nature \| Ocean bug has 'smallest genome'
		Pelagibacter feeds off dead organic matter that is dissolved in ocean water - lead researcher Stephen Giovannoni of Oregon State University likens it to a very thin chicken soup.
		The sheer abundance of Pelagibacter - there are an estimated 20 billion billion billion Pelagibacter microbes scattered throughout the world's oceans - is probably what has allowed the organism to streamline its genes.
		But Pelagibacter on the other hand, accounting for a quarter of all organisms in the ocean, is a shining example of Darwin's principle, the survival of the fittest.
	news.bbc.co.uk /2/hi/science/nature/4166076.stm (426 words)

	Dictionary of Meaning www.mauspfeil.net
		date = 2002}} {{Taxobox_end}} '''''Pelagibacter''''', with the single species ''P. ubique'', are possibly the most numerous bacterium bacteria in the world.
		They were originally named SAR11 and known only from their rRNA genes, which were first identified in environmental samples from the Sargasso Sea in 1990.
		They are some of the smallest self-replicating cells known, with a diameter of only 0.12-0.20 micrometre µm.
	www.mauspfeil.net /Pelagibacter_ubique.html (201 words)

	Grant Summary: Oregon State University—Giovannoni
		Last year Dr. Giovannoni and his team successfully cultured SAR 11, an elusive bacterial group now called Pelagibacter ubique.
		Pelagibacter are some of the smallest (billions fit into a teaspoon) and the most abundant organisms on Earth.
		Under this grant, Giovannoni and his team are working to understand the significance of Pelagibacter and describe how these ubiquitous microbes contribute to the Earth's largest ecosystem, the oceans.
	www.moore.org /grantees/grant_summaries_content.asp?Grantee=osu_giovannoni (115 words)

	DOE Genomes to Life Contractor-Grantee Workshop 2005
		The alphaproteobacterium SAR11, now known as Pelagibacter ubique, is arguably the most abundant organism in the oceans, where it accounts for approximately 25% of all microbial plankton cells.
		Pelagibacter plays a key role in the oxidation of the oceanic dissolved organic carbon pool, which is approximately equivalent in size to the atmospheric carbon dioxide pool.
		The Pelagibacter genome is almost exactly the size of the genomes of the obligate intracellular parasites R.
	genomicsgtl.energy.gov /pubs/2005abstracts/html/file71.shtml (473 words)

	[No title]
		SAR11 is the numerically dominant microorganism in the ocean surface.
		Environmental studies have been conducted off the coast of Oregon which have detected the Pelagibacter ubique proteorhodopsin amongst a complex mixture of proteins.
		In addition, laboratory experiments are currently underway to compare Pelagibacter ubique grown under light and dark conditions.
	www.mcb.oregonstate.edu /giovannoni/projects/subproject/sar11.htm (199 words)

	Diversa Corporation: Press Releases for 2005 (Site not responding. Last check: 2007-10-15)
		Despite its small size, the organism, Pelagibacter ubique, is apparently a dominant form of life in the oceans, appears to play a critical role in the cycling of carbon on Earth, and thrives where most other cells would die.
		The research, published in the current issue of the journal Science, also is important because it adds valuable insight into the role of natural selection on the genome size of organisms.
		Pelagibacter ubique belongs to a group of bacteria known as SAR 11, named for their discovery in the Sargasso Sea.
	www.diversa.com /presrele/2005/view_release.asp?id=2005818 (1250 words)

	Ribosomal RNA Predictions of Pelagibacter ubique strain HTCC1062, Main
		Ribosomal RNA Predictions of Pelagibacter ubique strain HTCC1062, Main
		CBS >> CBS Prediction Servers >> GenomeAtlas >> Bacteria >> Pelagibacter >> ubique >> rRNA Prediction for Pelagibacter ubique strain HTCC1062, Main
		Predicted LSU ribosomal RNA for Pelagibacter ubique strain HTCC1062, Main
	www.cbs.dtu.dk /services/GenomeAtlas/show-ribo.php?kingdom=Bacteria&segmentid=Pubique_HTCC1062_Main&type=LSU (61 words)

	[No title]
		SAR11 is the dominant microorganism in the ocean surface.
		Environmental studies have been conducted off the coast of Oregon which have detected the Pelagibacter ubique proteorhodopsin amongst a complex mixture of proteins.
		In addition, laboratory experiments are currently underway to compare Pelagibacter ubique grown under light and dark conditions.
	mcb.science.oregonstate.edu /giovannoni/projects/subproject/sar11.htm (191 words)

	Sequences of Candidatus Pelagibacter ubique (Site not responding. Last check: 2007-10-15)
		Pelagibacter ubique strain HTCC1002 16S ribosomal RNA, partialsequence; 16S-23S intergenic spacer region, complete sequence; tRNA-Ile and tRNA-Ala genes, complete sequence; and 23S ribosomal RNA, partial sequence.
		Pelagibacter ubique strain HTCC1062 16S ribosomal RNA, partialsequence; 16S-23S intergenic spacer region, complete sequence; tRNA-Ile and tRNA-Ala genes, complete sequence; and 23S ribosomal RNA, partial sequence.
		Pelagibacter ubique strain HTCC1051 16S ribosomal RNA, partialsequence; 16S-23S intergenic spacer region, complete sequence; tRNA-Ile and tRNA-Ala genes, complete sequence; and 23S ribosomal RNA, partial sequence.
	genstyle.imed.jussieu.fr /affichage_seq.php?id_esp=25644&nom_esp=Candidatus%20Pelagibacter%20ubique&nombre=3 (116 words)

	Giovannoni Lab, Department of Microbiology, Oregon State University
		The data from our studies was used to design DNA probes for routine microbial detection, and the probes were experimentally integrated into the Bermuda Atlantic Time Series Study (BATS) to provide long-term data about the large populations of marine bacteria that are found in the ocean surface layer.
		To better understand how these organisms are operating in the ocean surface layer, we are developing new approaches for culturing and identifying planktonic microorganisms at very low cell densities so that they can be studied in a laboratory setting.
		Our current efforts are focused on understanding the specific biochemical mechanisms that allow Pelagibacter and other species to cycle carbon in the vast oceanic environment.
	mcb.science.oregonstate.edu /giovannoni/index.html (468 words)

	sp=candidatus pelagibacter
		AF510191 Pelagibacter ubique strain HTCC1062 16S ribosomal RNA, partial sequence; 16S-23S intergenic spacer region, complete sequence; tRNA-Ile and tRNA-Ala genes, complete sequence; and 23S ribosomal RNA, partial sequence.
		AF510192 Pelagibacter ubique strain HTCC1002 16S ribosomal RNA, partial sequence; 16S-23S intergenic spacer region, complete sequence; tRNA-Ile and tRNA-Ala genes, complete sequence; and 23S ribosomal RNA, partial sequence.
		AF510193 Pelagibacter ubique strain HTCC1051 16S ribosomal RNA, partial sequence; 16S-23S intergenic spacer region, complete sequence; tRNA-Ile and tRNA-Ala genes, complete sequence; and 23S ribosomal RNA, partial sequence.
	pbil.univ-lyon1.fr /cgi-bin/acnuc-search-sp?query=CANDIDATUS%20PELAGIBACTER&db=GenBank (84 words)

	Find the Gold in the Junkdna = Junk DNA NEW Citations (Site not responding. Last check: 2007-10-15)
		Although obvious examples of junk DNA are conspicuously absent, it is likely that some of the 3.77% of "spacer DNA" has no function, and could be characterized as "junk".
		Clearly, it is the interplay between "coding" and "regulatory" segments of the DNA that results in (not "efficiency" and even more subjective "beautiful" or "streamlined"), but in the measure how "primitive" an organism is - from the point of view of hierarchical development.
		What needs to be pointed out, is that even the most primitive bacteria (Pelagibacter, or Mycoplasma genitalium) contain almost exactly the same (the minuscule amount of fifty thousand A,C,T,G base-pairs) that will predictably be the most suitable target to pinpoint the way in which "junkDNA" sequences augment the primary information of a particular "gene".
	www.junkdna.com /new_citations.html (17011 words)

	12-18-02 OSU SCIENTISTS VERIFY GLOBAL ABUNDANCE OF TINY MICROBE
		This suggests that SAR11 has an active role in the oceanic carbon cycle, which affects concentrations of carbon dioxide in the Earth's atmosphere.
		Electron micrograph of cultured SAR11 (Pelagibacter ubique) cells.
		To indicate scale of these tiny organisms, the dark circle in the middle is 1/2000 of a millimeter in diameter.
	osu.orst.edu /dept/ncs/newsarch/2002/Dec02/sar11.htm (620 words)

	Ecology and Physiology of Marine Organisms: Insights from Genes, Genomes, and Proteomes (Site not responding. Last check: 2007-10-15)
		Using serial dilution the same marine bacteria that are dominant in clone libraries appear in seawater cultures.
		Recently the SAR11 clade member, Pelagibacter ubique was isolated and its abundant presence in the global ocean has been demonstrated.
		These oligotrophic so-called "uncultured" bacteria do not form biofilms or colonies instead thrive dispersed in the water.
	www.aslo.org /meetings/honolulu2004/abstracts/637.html (272 words)

	Encyclopedia: Rickettsiales
		Environmental samples have found a variety of genes that originate from this group, pointing to a number of free-living planktonic species.
		These include SAR11, later cultivated as Pelagibacter ubique, one of the most common bacteria in the world.
		Click for other authoritative sources for this topic (summarised at Factbites.com).
	www.nationmaster.com /encyclopedia/Rickettsiales (164 words)

	Chesapeake Biological Laboratory - Title (Site not responding. Last check: 2007-10-15)
		A clone library of RT-PCR products of mRNA extracted from HOTS waters was sequenced and several novel proteorhodopsins were retrieved.
		One particularly frequent gene type was closely related to the PR from Pelagibacter ubique SAR 11, for which we designed a new real-time PCR set.
		Given constant RNA and DNA extraction efficiencies that were achieved by modifying protocol, we used the ratio of copy number of proteorhodopsin cDNAs to that of proteorhodopsin genes as an indicator of the expression levels of this specific proteorhodopsin gene in samples collected in a diel cycle as well as in depth-profiles.
	www.cbl.umces.edu /Research/ecologists/shi.htm (224 words)

	DNA Analysis of Pelagibacter ubique strain HTCC1062, Main
		DNA Analysis of Pelagibacter ubique strain HTCC1062, Main
		CBS >> CBS Prediction Servers >> GenomeAtlas >> Bacteria >> Pelagibacter >> ubique >> Segment Table for Pelagibacter ubique strain HTCC1062, Main
		Total hits for all Bacteria related pages has been accessed 7,464,209 times since 2004-03-23 14:47:10
	www.cbs.dtu.dk /services/GenomeAtlas/show-segment.php?kingdom=Bacteria&segmentid=Pubique_HTCC1062_Main (124 words)

	RedNova News - Science - Microbial Diversity Unbound (Site not responding. Last check: 2007-10-15)
		In the oceans, the ubiquitous phylum known as SAR11, first discovered in the Sargasso Sea, constitutes about a third of the microbial community in sea surface water.
		Oregon State University microbiologist Stephen Giovannoni and his colleagues describe the group as "among the most successful organisms on Earth." They've been known only by their distinctive 16S sequence, but recently Giovannoni's group isolated the first Pelagibacter cells from the phylum by growing them in very dilute seawater.
		To obtain an organism that's been identified only genetically, microbiologists look to its relatives for clues on how it might be cultured.
	www.rednova.com /news/display/?id=116690 (3228 words)

	Pelagibacter ubique (Site not responding. Last check: 2007-10-15)
		Amazon.com reports that it carries about 1,641 items relevant to Pelagibacter ubique
		You can click on this message to see their list of those items.
		Sorry, no screened links relevant to Pelagibacter ubique were found:
	www.omniknow.com /common/wiki.php?in=en&term=SAR11 (315 words)

	TAXON Query Form (Site not responding. Last check: 2007-10-15)
		Taxonomic subtree rooted by TaxID 198251 (Candidatus Pelagibacter)
		species: Candidatus Pelagibacter ubique (TaxID 198252, subtree, info)
		This service is based on data from the NCBI Taxonomy Database and SYSTERS.
	taxon.molgen.mpg.de /gettaxon?depth=3&prune=10000&taxid=198251 (29 words)

	Replies to Cosmic Ancestry, 2005. by Brig Klyce
		Brig, Have you read next month's Scientific American?
		An interesting quote in a discussion of Pelagibacter ubique (SAR11).
		The article is about the bacterium's small genome and the lack of junk DNA.
	www.panspermia.com /replies8.htm (15864 words)

	Untitled Document
		This gives a count of doubling cells > 20 % of direct counts
		SAR 11, possibly the most numerous bacterium in the world, has now named as Pelagibacter ubique
		SAR11 was first identified from a study of r-RNA genes in a sample of bacteria fom the Sargasso Sea in 1990.
	www.sos.bangor.ac.uk /marine/mb/O3B14/Sampling.html (386 words)

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