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Items: 16

1.

Functional tradeoffs underpin salinity-driven divergence in microbial community composition.

Dupont CL, Larsson J, Yooseph S, Ininbergs K, Goll J, Asplund-Samuelsson J, McCrow JP, Celepli N, Allen LZ, Ekman M, Lucas AJ, Hagström Å, Thiagarajan M, Brindefalk B, Richter AR, Andersson AF, Tenney A, Lundin D, Tovchigrechko A, Nylander JA, Brami D, Badger JH, Allen AE, Rusch DB, Hoffman J, Norrby E, Friedman R, Pinhassi J, Venter JC, Bergman B.

PLoS One. 2014 Feb 27;9(2):e89549. doi: 10.1371/journal.pone.0089549. eCollection 2014.

2.

Metagenomic exploration of viruses throughout the Indian Ocean.

Williamson SJ, Allen LZ, Lorenzi HA, Fadrosh DW, Brami D, Thiagarajan M, McCrow JP, Tovchigrechko A, Yooseph S, Venter JC.

PLoS One. 2012;7(10):e42047. doi: 10.1371/journal.pone.0042047. Epub 2012 Oct 17.

3.

Influence of nutrients and currents on the genomic composition of microbes across an upwelling mosaic.

Zeigler Allen L, Allen EE, Badger JH, McCrow JP, Paulsen IT, Elbourne LD, Thiagarajan M, Rusch DB, Nealson KH, Williamson SJ, Venter JC, Allen AE.

ISME J. 2012 Jul;6(7):1403-14. doi: 10.1038/ismej.2011.201. Epub 2012 Jan 26.

4.

Genomic insights to SAR86, an abundant and uncultivated marine bacterial lineage.

Dupont CL, Rusch DB, Yooseph S, Lombardo MJ, Richter RA, Valas R, Novotny M, Yee-Greenbaum J, Selengut JD, Haft DH, Halpern AL, Lasken RS, Nealson K, Friedman R, Venter JC.

ISME J. 2012 Jun;6(6):1186-99. doi: 10.1038/ismej.2011.189. Epub 2011 Dec 15.

5.

Stalking the fourth domain in metagenomic data: searching for, discovering, and interpreting novel, deep branches in marker gene phylogenetic trees.

Wu D, Wu M, Halpern A, Rusch DB, Yooseph S, Frazier M, Venter JC, Eisen JA.

PLoS One. 2011 Mar 18;6(3):e18011. doi: 10.1371/journal.pone.0018011.

6.

Genomic and functional adaptation in surface ocean planktonic prokaryotes.

Yooseph S, Nealson KH, Rusch DB, McCrow JP, Dupont CL, Kim M, Johnson J, Montgomery R, Ferriera S, Beeson K, Williamson SJ, Tovchigrechko A, Allen AE, Zeigler LA, Sutton G, Eisenstadt E, Rogers YH, Friedman R, Frazier M, Venter JC.

Nature. 2010 Nov 4;468(7320):60-6. doi: 10.1038/nature09530.

PMID:
21048761
7.

Characterization of Prochlorococcus clades from iron-depleted oceanic regions.

Rusch DB, Martiny AC, Dupont CL, Halpern AL, Venter JC.

Proc Natl Acad Sci U S A. 2010 Sep 14;107(37):16184-9. doi: 10.1073/pnas.1009513107. Epub 2010 Aug 23.

8.

It's all relative: ranking the diversity of aquatic bacterial communities.

Shaw AK, Halpern AL, Beeson K, Tran B, Venter JC, Martiny JB.

Environ Microbiol. 2008 Sep;10(9):2200-10. doi: 10.1111/j.1462-2920.2008.01626.x. Epub 2008 Jul 14.

PMID:
18637951
9.

The Sorcerer II Global Ocean Sampling Expedition: metagenomic characterization of viruses within aquatic microbial samples.

Williamson SJ, Rusch DB, Yooseph S, Halpern AL, Heidelberg KB, Glass JI, Andrews-Pfannkoch C, Fadrosh D, Miller CS, Sutton G, Frazier M, Venter JC.

PLoS One. 2008 Jan 23;3(1):e1456. doi: 10.1371/journal.pone.0001456.

10.

Evolution of allostery in the cyclic nucleotide binding module.

Kannan N, Wu J, Anand GS, Yooseph S, Neuwald AF, Venter JC, Taylor SS.

Genome Biol. 2007;8(12):R264.

11.

Viral photosynthetic reaction center genes and transcripts in the marine environment.

Sharon I, Tzahor S, Williamson S, Shmoish M, Man-Aharonovich D, Rusch DB, Yooseph S, Zeidner G, Golden SS, Mackey SR, Adir N, Weingart U, Horn D, Venter JC, Mandel-Gutfreund Y, Béjà O.

ISME J. 2007 Oct;1(6):492-501. Epub 2007 Aug 9.

PMID:
18043651
12.

Metagenomics and the global ocean survey: what's in it for us, and why should we care?

Nealson KH, Venter JC.

ISME J. 2007 Jul;1(3):185-7. Epub 2007 Jun 14. No abstract available.

PMID:
18043628
13.
14.

The Sorcerer II Global Ocean Sampling expedition: northwest Atlantic through eastern tropical Pacific.

Rusch DB, Halpern AL, Sutton G, Heidelberg KB, Williamson S, Yooseph S, Wu D, Eisen JA, Hoffman JM, Remington K, Beeson K, Tran B, Smith H, Baden-Tillson H, Stewart C, Thorpe J, Freeman J, Andrews-Pfannkoch C, Venter JE, Li K, Kravitz S, Heidelberg JF, Utterback T, Rogers YH, Falcón LI, Souza V, Bonilla-Rosso G, Eguiarte LE, Karl DM, Sathyendranath S, Platt T, Bermingham E, Gallardo V, Tamayo-Castillo G, Ferrari MR, Strausberg RL, Nealson K, Friedman R, Frazier M, Venter JC.

PLoS Biol. 2007 Mar;5(3):e77.

15.

Structural and functional diversity of the microbial kinome.

Kannan N, Taylor SS, Zhai Y, Venter JC, Manning G.

PLoS Biol. 2007 Mar;5(3):e17.

16.

The Sorcerer II Global Ocean Sampling expedition: expanding the universe of protein families.

Yooseph S, Sutton G, Rusch DB, Halpern AL, Williamson SJ, Remington K, Eisen JA, Heidelberg KB, Manning G, Li W, Jaroszewski L, Cieplak P, Miller CS, Li H, Mashiyama ST, Joachimiak MP, van Belle C, Chandonia JM, Soergel DA, Zhai Y, Natarajan K, Lee S, Raphael BJ, Bafna V, Friedman R, Brenner SE, Godzik A, Eisenberg D, Dixon JE, Taylor SS, Strausberg RL, Frazier M, Venter JC.

PLoS Biol. 2007 Mar;5(3):e16.

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