ArticleScientific reports2020
Influence of 16S rRNA target region on the outcome of microbiome studies in soil and saliva samples.
Article in Scientific reports, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers.
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Who cites it
30 citing papers in PubMed.
- Age Influences the Bacterial Composition of Samples From Buffaloes in the Marajó Archipelago, Pará, Brazilian Amazon.Environmental microbiology reports · 2026Article
- Choosing Between Short-Read 16S, Full-Length ONT 16S, and Long-Read Shotgun Metagenomics for Soil Microbiome Studies: A Critical Review of the Benchmarking Evidence.Microorganisms · 2026Review
- Metabarcoding Analysis Reveals Microbial Diversity and Its Environmental Drivers in the Pantanos de Villa Lagoons in Lima-Peru.Ecology and evolution · 2026Article
- Spatiotemporal and tissue-specific dynamics of bacterial communities in adult femaleFrontiers in cellular and infection microbiology · 2026Article
- Adaptation to Climatic Change and Epigenetic Modifications of Soil Microbiome.Advances in experimental medicine and biology · 2026Review
- Refining microbiome diversity analysis by concatenating and integrating dual 16S rRNA amplicon reads.NPJ biofilms and microbiomes · 2025Article
- Microbiome and biofilm insights from normal vs tumor tissues in Thai colorectal cancer patients.NPJ precision oncology · 2025Article
- Exploring the influence of psychological factors on the comorbidity of dental caries and obesity in adolescents from the perspective of the oral-gut-brain axis.Frontiers in cellular and infection microbiology · 2025Article
- Comparative evaluation of sequencing platforms: Pacific Biosciences, Oxford Nanopore Technologies, and Illumina for 16S rRNA-based soil microbiome profiling.Frontiers in microbiology · 2025Article
- Don't let valuable microbiome data go to waste: combined usage of merging and direct-joining of sequencing reads for low-quality paired-end amplicon data.Biotechnology letters · 2024Article
- Advancing microbiome research through standardized data and metadata collection: introducing the Microbiome Research Data Toolkit.Database : the journal of biological databases and curation · 2024Article
- High-throughput DNA extraction strategy for fecal microbiome studies.Microbiology spectrum · 2024Article
- Soil Fertilization with Palm Oil Mill Effluent Has a Short-Term Effect on the Bacterial Diversity of an Amazonian Agricultural Land Area.Microorganisms · 2024Article
- Correlation between Inflammasomes and Microbiota in Peri-Implantitis.International journal of molecular sciences · 2024Article
- Microbiomes ofFrontiers in microbiology · 2024Article
- Research progress on the application of 16S rRNA gene sequencing and machine learning in forensic microbiome individual identification.Frontiers in microbiology · 2024Review
- Article
- Taxonomic resolution of different 16S rRNA variable regions varies strongly across plant-associated bacteria.ISME communications · 2024Article
- Fermented Goat's Milk Contributes to the Recovery of Iron Deficiency Anemia via Modulation of the Gut Microbiome.Journal of agricultural and food chemistry · 2023Article
- A Refined, Controlled 16S rRNA Gene Sequencing Approach Reveals Limited Detection of Cerebrospinal Fluid Microbiota in Children with Bacterial Meningitis.Microbiology spectrum · 2023Article
Corrections and comments
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Authors and funding
9 authors.
Funding
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Abstract
Next generation sequencing methods are widely used in evaluating the structure and functioning of microbial communities, especially those centered on 16S rRNA subunit. Since Illumina Miseq, the most used sequencing platform, does not allow the full sequencing of 16S rRNA gene, this study aims to evaluate whether the choice of different target regions might affect the outcome of microbiome studies regarding soil and saliva samples. V1V3, V3V4, V4V5 and V6V8 domains were studied, finding that while some regions showed differences in the detection of certain bacterial taxa and in the calculation of alpha diversity, especially in soil samples, the overall effect did not compromise the differentiation of any sample type in terms of taxonomic analysis at the genus level. 16S rRNA target regions did affect the detection of specific bacteria related to soil quality and development, and microbial genera used as health biomarkers in saliva. V1V3 region showed the closest similarity to internal sequencing control mock community B, suggesting it might be the most preferable choice regarding data reliability.
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