Literature DB >> 12384570

Genomic analysis of uncultured marine viral communities.

Mya Breitbart1, Peter Salamon, Bjarne Andresen, Joseph M Mahaffy, Anca M Segall, David Mead, Farooq Azam, Forest Rohwer.   

Abstract

Viruses are the most common biological entities in the oceans by an order of magnitude. However, very little is known about their diversity. Here we report a genomic analysis of two uncultured marine viral communities. Over 65% of the sequences were not significantly similar to previously reported sequences, suggesting that much of the diversity is previously uncharacterized. The most common significant hits among the known sequences were to viruses. The viral hits included sequences from all of the major families of dsDNA tailed phages, as well as some algal viruses. Several independent mathematical models based on the observed number of contigs predicted that the most abundant viral genome comprised 2-3% of the total population in both communities, which was estimated to contain between 374 and 7,114 viral types. Overall, diversity of the viral communities was extremely high. The results also showed that it would be possible to sequence the entire genome of an uncultured marine viral community.

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Year:  2002        PMID: 12384570      PMCID: PMC137870          DOI: 10.1073/pnas.202488399

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  12 in total

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Review 5.  Counting the uncountable: statistical approaches to estimating microbial diversity.

Authors:  J B Hughes; J J Hellmann; T H Ricketts; B J Bohannan
Journal:  Appl Environ Microbiol       Date:  2001-10       Impact factor: 4.792

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Journal:  J Bacteriol       Date:  2002-08       Impact factor: 3.490

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8.  The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools.

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Review 9.  Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.

Authors:  S F Altschul; T L Madden; A A Schäffer; J Zhang; Z Zhang; W Miller; D J Lipman
Journal:  Nucleic Acids Res       Date:  1997-09-01       Impact factor: 16.971

10.  A conserved genetic module that encodes the major virion components in both the coliphage T4 and the marine cyanophage S-PM2.

Authors:  E Hambly; F Tétart; C Desplats; W H Wilson; H M Krisch; N H Mann
Journal:  Proc Natl Acad Sci U S A       Date:  2001-09-11       Impact factor: 11.205

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  359 in total

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Journal:  Appl Environ Microbiol       Date:  2003-08       Impact factor: 4.792

4.  Metagenomic profiling: microarray analysis of an environmental genomic library.

Authors:  Jonathan L Sebat; Frederick S Colwell; Ronald L Crawford
Journal:  Appl Environ Microbiol       Date:  2003-08       Impact factor: 4.792

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Review 6.  Phage-host interaction: an ecological perspective.

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Journal:  Proc Natl Acad Sci U S A       Date:  2004-07-15       Impact factor: 11.205

Review 8.  Phages and the evolution of bacterial pathogens: from genomic rearrangements to lysogenic conversion.

Authors:  Harald Brüssow; Carlos Canchaya; Wolf-Dietrich Hardt
Journal:  Microbiol Mol Biol Rev       Date:  2004-09       Impact factor: 11.056

9.  Movement of viruses between biomes.

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Journal:  Appl Environ Microbiol       Date:  2004-10       Impact factor: 4.792

10.  Genomic analysis of bacteriophage PhiJL001: insights into its interaction with a sponge-associated alpha-proteobacterium.

Authors:  Jayme E Lohr; Feng Chen; Russell T Hill
Journal:  Appl Environ Microbiol       Date:  2005-03       Impact factor: 4.792

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