Genomic analysis of uncultured marine viral communities

By Mya Breitbart, Peter Salamon, B. Andresen, J. Mahaffy, A. Segall, D. Mead, F. Azam, Forest Rohwer. Proceedings of the National Academy of Sciences of the United States of America, 2002

969 citations recorded by the source corpus.

Subfields: Ecology, Microbiology, Plant Science

View Paper: https://www.semanticscholar.org/paper/63b03cd3604548958e34bd054d62de464c2376f5

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Citations in the corpus

Viruses in the sea (2005, background): “The extent of viral diversity in the sea is driven home by meta-genomic studies in coastal water”
Marine viruses — major players in the global ecosystem (2007, background): “The first metagenomic studies of viral communities predicted that there would be thousands to more than a million different genotypes in samples of coastal waters and sediment”
Metagenomics: genomic analysis of microbial communities. (2004, background): “For instance, T7-like podophages comprised over 30% of the marine phage types (16) and less than 6% of the fecal phage types (15).”
Diel cycles in viral infection of bacterioplankton in the North Sea (2004, background): “It seems problematic to combine the coordinated viral infection and lysis pattern with the existence of highly diverse viral communities (Breitbart et al. 2002).”
The Marine Viromes of Four Oceanic Regions (2006, methodology): “In addition to the four metagenomes sequenced for this study, the previous viral metagenomes from the San Diego area (California coast) were also included in this analysis [10].”
Phages and the Evolution of Bacterial Pathogens: from Genomic Rearrangements to Lysogenic Conversion (2004, background): “(“metagenome” analysis [29, 30]) argues in favor of 2 billion”
A highly abundant bacteriophage discovered in the unknown sequences of human faecal metagenomes (2014, methodology): “PCR cycling conditions were as follows: (1) denaturation at 95 C for 2min; (2) denaturation at 95 C for 10 s; (3) annealing at 58 C for 30 s; touchdown at 0.”
The Pacific Ocean Virome (POV): A Marine Viral Metagenomic Dataset and Associated Protein Clusters for Quantitative Viral Ecology (2013, methodology): “Four SIO metagenomes were derived from a single coastal, surface water sample from Scripps Pier (San Diego, CA, April 2009, spring), the site of the first viral metagenome [20], that were differentially concentrated and purified (4 treatments, .”
Microbial Biogeography: Patterns in Microbial Diversity across Space and Time (2008, positive): “Recent evidence suggests that bacteria are not unique in this regard as other microbial groups (including protists,viruses, archaea, and fungi) may also exhibit very high levels of local phylogenetic diversity (Breitbart et al., 2002; Fierer et al., In Press; O'Brien et al., 2005; Walsh et al., 2005”
The Sorcerer II Global Ocean Sampling Expedition: Expanding the Universe of Protein Families (2007, result): “If a sizable portion of the novel families in the GOS data are in fact of viral origin, it suggests that we are far from fully exploring the molecular diversity of viruses, a conclusion echoed in previous studies of viral metagenomes [53,57,58].”
Viruses manipulate the marine environment (2009, background): “Shotgun sequencing led to the rise of marine viral metagenomics, which has shown that viruses are exceptionally diverse: there are more than 5,000 viral genotypes or species in 100 litres of sea water, and up to 1 million species in 1 kg of marine sedimen”
Metagenomics: DNA sequencing of environmental samples (2005, methodology): “In this way, filtration protocols can be chosen to enrich for eukaryotic cells, prokaryotic cells or viral particle”
Alternative stable states in host–phage dynamics (2008, background): “Likewise, breakthroughs in sampling viral metagenomes are providing new insights into the diversity, function, and dynamics of environmental phages ( Breitbart et al. 2002; Edwards and Rohwer 2005).”
Exploring the Vast Diversity of Marine Viruses (2007, background): “Furthermore, 65–95% of marine viral metagenomic sequences are not simi- lar to previously described sequences (Breitbart et al., 2002, 2004; Angly et al., 2006; Culley et al., 2006), as opposed to ~ 10% for cellular metagenomic surveys (Tyson et al., 2004; Venter et al., 2004), suggesting that we…”
Atmosphere: A Source of Pathogenic or Beneficial Microbes? (2012, background): “proteorhodopsin-based phototrophy [98,99], and viral activity [100] in the ocean.”
Here a virus, there a virus, everywhere the same virus? (2005, methodology): “To assess total dsDNA viral diversity, Breitbart et al. partially sequenced shotgun libraries from uncultured viral communities isolated from seawater [ 35 ], marine sediment [36] and human fecal matter [37].”