ArticleScientific reports2016
Direct 16S rRNA-seq from bacterial communities: a PCR-independent approach to simultaneously assess microbial diversity and functional activity potential of each taxon.
Article in Scientific reports, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 39 papers, 1 of them a synthesis that pooled it.
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Who cites it
39 citing papers in PubMed, 1 synthesis or guideline pooled it.
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- Synergistic effects of multi-strain probiotics and Chinese herbal medicine on growth performance and gut health in weaned piglets.Frontiers in veterinary science · 2025Article
- Methodologic Considerations for Studying the Ocular Surface Microbiome.Ophthalmology science · 2023Review
- Comparison of Oral Microbial Composition and Determinants Encoding Antimicrobial Resistance in Dogs and Their Owners.Antibiotics (Basel, Switzerland) · 2023Article
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- Development of rapid and precise approach for quantification of bacterial taxa correlated with soil health.Frontiers in microbiology · 2022Article
- Genome Mining of Three Plant Growth-Promoting Bacillus Species from Maize Rhizosphere.Applied biochemistry and biotechnology · 2021Article
- Amplification of Femtograms of Bacterial DNA Within 3 h Using a Digital Microfluidics Platform for MinION Sequencing.ACS omega · 2021Article
- Evaluating tannery wastewater treatment performance based on physicochemical and microbiological characteristics: An Ethiopian case study.Water environment research : a research publication of the Water Environment Federation · 2021Article
- Antibacterial Effects of Recombinant Endolysins in Disinfecting Medical Equipment: A Pilot Study.Frontiers in microbiology · 2021Article
- Spatial Distribution of Arctic Bacterioplankton Abundance Is Linked to Distinct Water Masses and Summertime Phytoplankton Bloom Dynamics (Fram Strait, 79°N).Frontiers in microbiology · 2021Article
- Prevalence, genotyping and antibiotic resistance ofIranian journal of microbiology · 2020Article
- Reconstructing ribosomal genes from large scale total RNA meta-transcriptomic data.Bioinformatics (Oxford, England) · 2020Article
Corrections and comments
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Authors and funding
12 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The analysis of environmental microbial communities has largely relied on a PCR-dependent amplification of genes entailing species identity as 16S rRNA. This approach is susceptible to biases depending on the level of primer matching in different species. Moreover, possible yet-to-discover taxa whose rRNA could differ enough from known ones would not be revealed. DNA-based methods moreover do not provide information on the actual physiological relevance of each taxon within an environment and are affected by the variable number of rRNA operons in different genomes. To overcome these drawbacks we propose an approach of direct sequencing of 16S ribosomal RNA without any primer- or PCR-dependent step. The method was tested on a microbial community developing in an anammox bioreactor sampled at different time-points. A conventional PCR-based amplicon pyrosequencing was run in parallel. The community resulting from direct rRNA sequencing was highly consistent with the known biochemical processes operative in the reactor. As direct rRNA-seq is based not only on taxon abundance but also on physiological activity, no comparison between its results and those from PCR-based approaches can be applied. The novel principle is in this respect proposed not as an alternative but rather as a complementary methodology in microbial community studies.
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