Environmental Genome Shotgun Sequencing of the Sargasso Sea

By C. Venter, K. Remington, J. Heidelberg, A. Halpern, D. Rusch, Jonathan A. Eisen, Dongying Wu, Ian T. Paulsen, K. Nelson, W. Nelson and 13 more. Science, 2004

4,349 citations recorded by the source corpus.

Subfields: Cellular and Molecular Neuroscience, Ecology, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/338427238b13cbc325d4f6a778d2a71a44557e79

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Citations in the corpus

Nitrososphaera viennensis, an ammonia oxidizing archaeon from soil (2011, neutral): “…proteins with homology to ammonia monooxygenases ( amo A) in genome fragments of archaea from soil (7) and in shotgun sequencesofmarineenvironments(10),aswellasthecultivationor enrichmentofmarineandthermophilicammoniaoxidizingar-chaea(AOA)(8,11,12)hasradicallychangedthisview,indicating…”
Temporal and spatial scales of variation in bacterioplankton assemblages of oligotrophic surface waters (2006, background): “Containment alone of bacterioplankton in bottle incubations (Schwalbach et al. 2004, Winter et al. 2004) and field enclosures (Hewson et al. 2003) caused significant shifts in assemblage composition in some studies, on time scales from days (fast-growing bacterioplankton) to weeks (slow-growing…”
Abundance and community structure of ammonia-oxidizing archaea and bacteria in an acid paddy soil (2011, background): “…the last few years, the traditional view of ammonia oxidation has been changed by the discovery of the amoA gene associated with the domain archaea (Venter et al. 2004; Könneke et al. 2005; Treusch et al. 2005), suggesting that ammonia-oxidizing archaea (AOA) may be another group of ammonia…”
Autotrophic Ammonia Removal Processes: Ecology to Technology (2012, background): “This indicated that Crenarchaeota is a major contributor is both soil and oceanic ammonia oxidation.”
Assembling metagenomes, one community at a time (2017, background): “We note the published predictions that 2–5 Gbp of sequence data would fully capture an entire natural microbial community [42].”
The Sorcerer II Global Ocean Sampling Expedition: Expanding the Universe of Protein Families (2007, methodology): “Previously, in the Sargasso Sea study [10] it was shown that shotgun sequencing reveals a much greater diversity of proteorhodopsin-like proteins than was previously known from cloning and PCR studies.”
RNAmmer: consistent and rapid annotation of ribosomal RNA genes (2007, background): “Time diﬀerences between searching long and short sequences were examined by searching through the complete sequence of Solibacter usitatus Ellin6076, and through the Sargasso Sea environmental samples (19).”
bold: The Barcode of Life Data System (http://www.barcodinglife.org) (2007, background): “The use of sequence thresholds to generate identifications has gained broad application in studies of microbial life (Venter et al .”
Ultrafast clustering algorithms for metagenomic sequence analysis (2012, background): “Sea [3], human gut [4] and soil [5], relied on traditional Sanger sequencing technology, so most of these projects have limited throughput.”