ArticleApplied and environmental microbiology2008
Randomly amplified polymorphic DNA PCR as a tool for assessment of marine viral richness.
Article in Applied and environmental microbiology, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 32 papers.
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Who cites it
32 citing papers in PubMed.
- RAPD Markers for the Study of Genetic Diversity in Echium amoenum Ecotypes.Methods in molecular biology (Clifton, N.J.) · 2027Article
- Long-term decline of marine viruses associated with warming and oligotrophication at a NW Mediterranean coastal site.ISME communications · 2025Article
- SARS-CoV-2 and other viruses in soil: An environmental outlook.Environmental research · 2021Review
- Uncultivated Viral Populations Dominate Estuarine Viromes on the Spatiotemporal Scale.mSystems · 2021Article
- Widespread cryptic viral infections in lotic biofilms.Biofilm · 2020Article
- Assessing Viral Abundance and Community Composition in Four Contrasting Regions of the Southern Ocean.Life (Basel, Switzerland) · 2020Article
- Bacteriophage genotyping using BOXA repetitive-PCR.BMC microbiology · 2020Article
- Temporal Dynamics of Soil Virus and Bacterial Populations in Agricultural and Early Plant Successional Soils.Frontiers in microbiology · 2020Article
- Genetic validation and spectroscopic detailing of DHN-melanin extracted from an environmental fungus.Biochemistry and biophysics reports · 2017Article
- Review
- Soil Viral Communities Vary Temporally and along a Land Use Transect as Revealed by Virus-Like Particle Counting and a Modified Community Fingerprinting Approach (fRAPD).Frontiers in microbiology · 2017Article
- A comprehensive method for amplicon-based and metagenomic characterization of viruses, bacteria, and eukaryotes in freshwater samples.Microbiome · 2016Article
- Life-style and genome structure of marine Pseudoalteromonas siphovirus B8b isolated from the northwestern Mediterranean Sea.PloS one · 2015Article
- Article
- Environmental bacteriophages: viruses of microbes in aquatic ecosystems.Frontiers in microbiology · 2014Review
- Stormwater runoff drives viral community composition changes in inland freshwaters.Frontiers in microbiology · 2014Article
- Evidence from phylogenetic and genome fingerprinting analyses suggests rapidly changing variation in Halorubrum and Haloarcula populations.Frontiers in microbiology · 2014Article
- Direct assessment of viral diversity in soils by random PCR amplification of polymorphic DNA.Applied and environmental microbiology · 2013Article
- Effects of environmental variation and spatial distance on bacteria, archaea and viruses in sub-polar and arctic waters.The ISME journal · 2013Article
- Effects of patch connectivity and heterogeneity on metacommunity structure of planktonic bacteria and viruses.The ISME journal · 2013Article
Corrections and comments
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Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Recent discoveries have uncovered considerable genetic diversity among aquatic viruses and raised questions about the variability of this diversity within and between environments. Studies of the temporal and spatial dynamics of aquatic viral assemblages have been hindered by the lack of a common genetic marker among viruses for rapid diversity assessments. Randomly amplified polymorphic DNA (RAPD) PCR bypasses this obstacle by sampling at the genetic level without requiring viral isolation or previous sequence knowledge. In this study, the utility of RAPD-PCR for assessing DNA viral richness within Chesapeake Bay water samples was evaluated. RAPD-PCR using single 10-mer oligonucleotide primers successfully produced amplicons from a variety of viral samples, and banding patterns were highly reproducible, indicating that each band likely represents a single amplicon originating from viral template DNA. In agreement with observations from other community profiling techniques, resulting RAPD-PCR banding patterns revealed more temporal than spatial variability in Chesapeake Bay virioplankton assemblages. High-quality hybridization probes and sequence information were also easily generated from single RAPD-PCR products or whole reactions. Thus, the RAPD-PCR technique appears to be practical and efficient for routine use in high-resolution viral diversity studies by providing assemblage comparisons through fingerprinting, probing, or sequence information.
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