Sargasso Sea and Global Ocean Survey Metagenomics

We collaborated with J. Craig Venter and others in analysis of the Sargasso Sea metagenome and Global Ocean Survey (GOS) metagenomes.

Publications from this collaboration include:

• 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.
• Environmental shotgun sequencing: its potential and challenges for studying the hidden world of microbes. Eisen JA. PLoS Biol. 2007 Mar;5(3):e82. No abstract available.
• 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.

• 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.
• Environmental genome shotgun sequencing of the Sargasso Sea.Venter JC, Remington K, Heidelberg JF, Halpern AL, Rusch D, Eisen JA, Wu D, Paulsen I, Nelson KE, Nelson W, Fouts DE, Levy S, Knap AH, Lomas MW, Nealson K, White O, Peterson J, Hoffman J, Parsons R, Baden-Tillson H, Pfannkoch C, Rogers YH, Smith HO. Science. 2004 Apr 2;304(5667):66-74. Epub 2004 Mar 4.