ArticleApplied and environmental microbiology2006
Assessment of factors influencing direct enumeration of viruses within estuarine sediments.
Article in Applied and environmental microbiology, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
19 citing papers in PubMed, 46 citations in OpenAlex.
- Ecogenomics reveals viral communities across the Challenger Deep oceanic trench.Communications biology · 2022Article
- An Advanced Protocol for the Quantification of Marine Sediment Viruses via Flow Cytometry.Viruses · 2021Article
- New Insights Into the Virus-to-Prokaryote Ratio (VPR) in Marine Sediments.Frontiers in microbiology · 2020Article
- An Improved Method for Extracting Viruses From Sediment: Detection of Far More Viruses in the Subseafloor Than Previously Reported.Frontiers in microbiology · 2019Article
- Viral-Induced Mortality of Prokaryotes in a Tropical Monsoonal Estuary.Frontiers in microbiology · 2017Article
- Virioplankton dynamics are related to eutrophication levels in a tropical urbanized bay.PloS one · 2017Article
- Optimization of viral resuspension methods for carbon-rich soils along a permafrost thaw gradient.PeerJ · 2016Article
- Counting viruses and bacteria in photosynthetic microbial mats.Applied and environmental microbiology · 2015Article
- Viral Impact on Prokaryotic and Microalgal Activities in the Microphytobenthic Biofilm of an Intertidal Mudflat (French Atlantic Coast).Frontiers in microbiology · 2015Article
- Extracellular DNA can preserve the genetic signatures of present and past viral infection events in deep hypersaline anoxic basins.Proceedings. Biological sciences · 2014Article
- Viral infections stimulate the metabolism and shape prokaryotic assemblages in submarine mud volcanoes.The ISME journal · 2012Article
- Diversity and abundance of single-stranded DNA viruses in human feces.Applied and environmental microbiology · 2011Article
- Repeating patterns of virioplankton production within an estuarine ecosystem.Proceedings of the National Academy of Sciences of the United States of America · 2011Article
- Impacts of poultry house environment on poultry litter bacterial community composition.PloS one · 2011Article
- Article
- Seasonal dynamics and metagenomic characterization of estuarine viriobenthos assemblages by randomly amplified polymorphic DNA PCR.Applied and environmental microbiology · 2009Article
- Determination of viral production in aquatic sediments using the dilution-based approach.Nature protocols · 2009Article
- Prokaryote diversity and virus abundance in shallow hydrothermal vents of the Mediterranean Sea (Panarea Island) and the Pacific Ocean (north Sulawesi-Indonesia).Microbial ecology · 2008Article
- Sunscreens cause coral bleaching by promoting viral infections.Environmental health perspectives · 2008Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Accurate enumeration of viruses within environmental samples is critical for investigations of the ecological role of viruses and viral infection within microbial communities. This report evaluates differences in viral and bacterial direct counts between estuarine sediment samples which were either immediately processed onboard ship or frozen at -20 degrees C and later processed. Viral and bacterial abundances were recorded at three stations spanning the length of the Chesapeake Bay in April and June 2003 within three sediment fractions: pore water (PW), whole sediment (WS), and sediment after pore water removal (AP). No significant difference in viral abundance was apparent between extracts from fresh or frozen sediments. In contrast, bacterial abundance was significantly lower in the samples subjected to freezing. Both bacterial and viral abundance showed significant differences between sediment fractions (PW, WS, or AP) regardless of the fresh or frozen status. Although pore water viral abundance has been used in the past as a measurement of viral abundance in sediments, this fraction accounted for only ca. 5% of the total sediment viral abundance across all samples. The effect of refrigerated storage of sediment viral extracts was also examined and showed that, within the first 2 h, viral abundance decreased ca. 30% in formalin-fixed extracts and 66% in unfixed extracts. Finally, the reliability of direct viral enumeration via epifluorescence microscopy was tested by using DNase treatment of WS extractions. These tests indicated that a large fraction (>86%) of the small SYBR gold fluorescing particles are likely viruses.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.