ArticleApplied and environmental microbiology2010
High abundance of ammonia-oxidizing Archaea in coastal waters, determined using a modified DNA extraction method.
Article in Applied and environmental microbiology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 49 papers.
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Who cites it
49 citing papers in PubMed.
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- Coevolution and Adaptation of Transition Nuclear Proteins and Protamines in Naturally Ascrotal Mammals Support the Black Queen Hypothesis.Genome biology and evolution · 2024Article
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- Nitrosomonas supralitoralis sp. nov., an ammonia-oxidizing bacterium from beach sand in a supralittoral zone.Archives of microbiology · 2022Article
- Capturing marine microbiomes and environmental DNA: A field sampling guide.Frontiers in microbiology · 2022Review
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- Distribution characteristics of microbial community structure in atmospheric particulates of the typical industrial city in Jiangsu province, China.Bioengineered · 2021Article
- Determination of Microbial Diversity and Community Composition in Unfermented and Fermented Washing Rice Water by High-Throughput Sequencing.Current microbiology · 2021Article
- Effects of Seasonal Anoxia on the Microbial Community Structure in Demosponges in a Marine Lake in Lough Hyne, Ireland.mSphere · 2021Article
- Enteromorpha prolifera Diet Drives Intestinal Microbiome Composition in Siganus oramin.Current microbiology · 2021Article
- Nutrient-Limited Enrichments of Nitrifiers From Soil Yield Consortia ofFrontiers in microbiology · 2021Article
- Comparison of performance and efficiency of four methods to extract genomic DNA from oil contaminated soils in southwestern of Iran.Journal of environmental health science & engineering · 2020Article
- Bioorthogonal non-canonical amino acid tagging reveals translationally active subpopulations of the cystic fibrosis lung microbiota.Nature communications · 2020Article
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- Effects of Extended Postmortem Interval on Microbial Communities in Organs of the Human Cadaver.Frontiers in microbiology · 2020Article
- Microbial signatures of protected and impacted Northern Caribbean reefs: changes from Cuba to the Florida Keys.Environmental microbiology · 2020Article
- Bacterial alkylquinolone signaling contributes to structuring microbial communities in the ocean.Microbiome · 2019Article
- Draft Genome Sequence ofMicrobiology resource announcements · 2019Article
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3 authors.
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Abstract
Molecular characterizations of environmental microbial populations based on recovery and analysis of DNA generally assume efficient or unbiased extraction of DNA from different sample matrices and microbial groups. Appropriate controls to verify this basic assumption are rarely included. Here three different DNA extractions, performed with two commercial kits (FastDNA and UltraClean) and a standard phenol-chloroform method, and two alternative filtration methods (Sterivex and 25-mm-diameter polycarbonate filters) were evaluated, using the addition of Nitrosopumilus maritimus cells to track the recovery of DNA from marine Archaea. After the comparison, a simplified phenol-chloroform extraction method was developed and shown to be significantly superior, in terms of both the recovery and the purity of DNA, to other protocols now generally applied to environmental studies. The simplified and optimized method was used to quantify ammonia-oxidizing Archaea at different depth intervals in a fjord (Hood Canal) by quantitative PCR. The numbers of Archaea increased with depth, often constituting as much as 20% of the total bacterial community.
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