ArticleMolecular ecology2021
The masking effect of extracellular DNA and robustness of intracellular DNA in anaerobic digester NGS studies: A discriminatory study of the total DNA pool.
Article in Molecular ecology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed, 30 citations in OpenAlex.
- Extracellular DNA Alters Detection of Subtle Bacterial Responses to Soil Rewetting.Microbial ecology · 2026Article
- Dairy manure reception pits as reservoirs of extracellular DNA-associated antibiotic resistance genes.Microbiology spectrum · 2026Article
- State-Specific Extraction of Environmental DNA: Spike-and-Recovery Controls to Validate and Optimise Extraction Protocols.Environmental microbiology · 2025Article
- The performance of different methods in characterizing soil live prokaryotic diversity and abundance is highly variable.iMetaOmics · 2025Article
- Revealing the Viable Microbial Community of Biofilm in a Sewage Treatment System Using Propidium Monoazide Combined with Real-Time PCR and Metagenomics.Microorganisms · 2024Article
- Fungal and bacterial communities and their associations in snow-free and snow covered (sub-)alpine Pinus cembra forest soils.Environmental microbiome · 2024Article
- Generation of zero-valent sulfur from dissimilatory sulfate reduction in sulfate-reducing microorganisms.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Why eDNA fractions need consideration in biomonitoring.Molecular ecology resources · 2022Review
- Extracellular DNA in Environmental Samples: Occurrence, Extraction, Quantification, and Impact on Microbial Biodiversity Assessment.Applied and environmental microbiology · 2022Article
- A Novel Propidium Monoazide-Based PCR Assay Can Measure Viable UropathogenicFrontiers in cellular and infection microbiology · 2022Article
- A case of disseminated Legionnaires' disease: The value of metagenome next-generation sequencing in the diagnosis of Legionnaires.Frontiers in medicine · 2022Article
- The Molecular Information About Deadwood Bacteriomes Partly Depends on the Targeted Environmental DNA.Frontiers in microbiology · 2021Article
- The masking effect of extracellular DNA and robustness of intracellular DNA in anaerobic digester NGS studies: A discriminatory study of the total DNA pool.Molecular ecology · 2021Article
Corrections and comments
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Authors and funding
5 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Most commonly, next generation sequencing-based microbiome studies are performed on the total DNA (totDNA) pool; however, this consists of extracellular- (exDNA) and intracellular (iDNA) DNA fractions. By investigating the microbiomes of different anaerobic digesters over time, we found that totDNA suggested lower species richness considering all and/or only common species and yielded fewer unique reads as compared to iDNA. Additionally, exDNA-derived sequences were more similar to those from totDNA than from iDNA and, finally, iDNA showed the best performance in tracking temporal changes in microbial communities. We postulate that abundant sequences present within the exDNA fraction mask the overall results of totDNA and provide evidence that exDNA has the potential to qualitatively bias microbiome studies at least in the anaerobic digester environment as it contains information about cells that were lysed hours or days ago. iDNA, however, was found to be more appropriate in providing reliable genetic information about potentially alive as well as rare microbes within the target habitat.
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