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Global Ocean Sampling Expedition


PLoS Biology Special Oceanic Metagenomics Collection

Llorens-Marès T, Yooseph S, et al.
Connecting Biodiversity and Potential Functional Role in Modern Euxinic Environments by Microbial Metagenomics.

The ISME Journal. 2015 Jul 01; 9: 1648-61.[more]

Yooseph, S., Nealson, K. H., et al.
Genomic and Functional Adaptation In Surface Ocean Planktonic Prokaryotes

Nature. 2010 Nov 04; 468(7320): 60-6.[more]

Yooseph S, Li W, et al.
Gene Identification and Protein Classification in Microbial Metagenomic Sequence Data via Incremental Clustering.

BMC Bioinformatics. 2008 Apr 01; 9(1): 182.[more]

Wu D, Wu M, et al.
Stalking the Fourth Domain in Metagenomic Data: Searching For, Discovering, and Interpreting Novel, Deep Branches in Marker Gene Phylogenetic Trees.

PloS One. 2011 Sep 01; 6: e18011.[more]

Worden AZ, Dupont C, et al.
Genomes of Uncultured Eukaryotes: Sorting FACS from Fiction.

Genome biology. 2011 May 01; 12: 117.[more]

Williamson SJ, Allen LZ, et al.
Metagenomic Exploration of Viruses Throughout the Indian Ocean.

PloS One. 2012 Apr 01; 7: e42047.[more]

Santoro AE, Dupont CL, et al.
Genomic and Proteomic Characterization of "Candidatus Nitrosopelagicus Brevis": an Ammonia-oxidizing Archaeon from the Open Ocean.

Proceedings of the National Academy of Sciences of the United States of America. 2015 Jan 27; 112: 1173-8.[more]

Roitman S, Flores-Uribe J, et al.
Closing the Gaps on the Viral Photosystem-I PsaDCAB Gene Organization.

Environmental Microbiology. 2015 Aug 26;[more]

Tanenbaum DM, Goll J, et al.
The JCVI Standard Operating Procedure for Annotating Prokaryotic Metagenomic Shotgun Sequencing Data

Stand. Genomic Sci.. 2010 Mar 25; 2(2)[more]

Seshadri, R., Kravitz, S. A., et al.
CAMERA: A Community Resource for Metagenomics

PLoS Biol. 2007 Mar 13; 5(3): e75.[more]

Rusch DB, Lombardo MJ, et al.
Draft Genome Sequence of a Single Cell of SAR86 Clade Subgroup IIIa.

Genome Announcements. 2013 Jan 01; 1[more]

Rusch, D. B., Martiny, A. C., et al.
Characterization of Prochlorococcus Clades from Iron-depleted Oceanic Regions

Proc Natl Acad Sci U S A. 2010 Sep 14; 107(37): 16184-9.[more]

Lorenzi HA, Hoover J, et al.
TheViral MetaGenome Annotation Pipeline(VMGAP):an Automated Tool for the Functional Annotation of Viral Metagenomic Shotgun Sequencing Data.

Standards in Genomic Sciences. 2011 Jul 01; 4: 418-29.[more]

Larsson J, Celepli N, et al.
Picocyanobacteria Containing a Novel Pigment Gene Cluster Dominate the Brackish Water Baltic Sea.

The ISME Journal. 2014 Sep 01; 8: 1892-903.[more]

Goll J, Rusch DB, et al.
METAREP: JCVI Metagenomics Reports--an Open Source Tool for High-performance Comparative Metagenomics.

Bioinformatics (Oxford, England). 2010 Oct 15; 26: 2631-2.[more]

Gilbert, JA., Dupont, CL.
Microbial Metagenomics: Beyond the Genome

Annu. Rev. Mar. Sci.. 2011 Jan 01; 3: 347-71.[more]

Dupont CL, McCrow JP, et al.
Genomes and Gene Expression Across Light and Productivity Gradients in Eastern Subtropical Pacific Microbial Communities.

The ISME Journal. 2015 May 01; 9: 1076-92.[more]

Dupont CL, Larsson J, et al.
Functional Tradeoffs Underpin Salinity-driven Divergence in Microbial Community Composition.

PloS One. 2014 Sep 01; 9: e89549.[more]

Dupont CL, Rusch DB, et al.
Genomic Insights to SAR86, an Abundant and Uncultivated Marine Bacterial Lineage.

The ISME journal. 2012 Jun 01; 6: 1186-99.[more]

Cuvelier, M. L., Allen, A. E., et al.
Targeted Metagenomics and Ecology of Globally Important Uncultured Eukaryotic Phytoplankton

Proc Natl Acad Sci U S A. 2010 Jul 28; 107(33): 14679-84.[more]

Allen, L. Z., Ishoey, T., et al.
Single Virus Genomics: a New Tool for Virus Discovery

PLoS ONE. 2011 Jan 01; 6(3): e17722.[more]

Zeigler Allen L, Allen EE, et al.
Influence of Nutrients and Currents on the Genomic Composition of Microbes Across an Upwelling Mosaic.

The ISME Journal. 2012 Jul 01; 6: 1403-14.[more]

Allen AE, Allen LZ, et al.
Lineage Specific Gene Family Enrichment at the Microscale in Marine Systems.

Current Opinion in Microbiology. 2013 Oct 01; 16: 605-17.[more]

Shaw, A. K., Halpern, A. L., et al.
It's All Relative: Ranking the Diversity of Aquatic Bacterial Communities

Environ Microbiol. 2008 Sep 10; 10(9): 2200-10.[more]

Williamson, S. J., Rusch, D. B., et al.
The Sorcerer II Global Ocean Sampling Expedition: Metagenomic Characterization of Viruses Within Aquatic Microbial Samples

PLoS ONE. 2008 Jan 23; 3(1): e1456.[more]

Sharon, I., Tzahor, S., et al.
Viral Photosynthetic Reaction Center Genes and Transcripts In the Marine Environment

Isme J. 2007 Oct 01; 1(6): 492-501.[more]

Yutin, N., Suzuki, M. T., et al.
Assessing Diversity and Biogeography of Aerobic Anoxygenic Phototrophic Bacteria In Surface Waters of the Atlantic and Pacific Oceans Using the Global Ocean Sampling Expedition Metagenomes

Environ Microbiol. 2007 Jun 01; 9(6): 1464-75.[more]

Rusch, D. B., Halpern, A. L., et al.
The Sorcerer II Global Ocean Sampling Expedition: Northwest Atlantic Through Eastern Tropical Pacific

PLoS Biol. 2007 Mar 13; 5(3): e77.[more]

Kannan, N., Taylor, S. S., et al.
Structural and Functional Diversity of the Microbial Kinome

PLoS Biol. 2007 Mar 01; 5(3): e17.[more]

Yooseph S, Sutton G, et al.
The Sorcerer II Global Ocean Sampling Expedition: Expanding the Universe of Protein Families.

PLoS Biology. 2007 Mar 01; 5(3): e16.[more]

Venter, J. C., Remington, K., et al.
Environmental Genome Shotgun Sequencing of the Sargasso Sea

Science. 2004 Apr 02; 304(5667): 66-74.[more]