ArticlemSystems2022
synDNA-a Synthetic DNA Spike-in Method for Absolute Quantification of Shotgun Metagenomic Sequencing.
Article in mSystems, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 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.
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Who cites it
27 citing papers in PubMed.
- Deconfounded, quantitative microbiome profiling identifies robust multiple sclerosis markers and clinical covariate associations.Gut microbes · 2026Article
- Article
- Single-cell detection and quantification of the microbiota by MicFLY.Cell host & microbe · 2026Article
- Disentangling host identity and storage time effects on gut microbiota composition in captive migratory birds using absolute and relative quantification.Current zoology · 2026Article
- Water kefir as a paradigm for multi-omics and genome-scale metabolic modelling in fermented food.NPJ biofilms and microbiomes · 2026Review
- Standardized and batch effect-independent technologies enable global collaboration in microbiome research.The ISME journal · 2026Article
- Seminal dysbiosis in idiopathic male infertility: toward a seminal dysbiosis-inflammatory/oxidative endophenotype-SDF axis.Frontiers in endocrinology · 2026Review
- Quantification of the absolute abundance of the jejunal mucosa-associated microbiota of pigs using spike-in control.Microbiome research reports · 2026Article
- Intestinal microbiota in nursery pigs: comments on anatomical location, spatial niches, and approaches to data interpretation.Microbiome research reports · 2026Article
- Single-cell quantification of the microbiota by flow cytometry: MicFLY.bioRxiv : the preprint server for biology · 2025Article
- Uncertainty Modeling Outperforms Machine Learning for Microbiome Data Analysis.bioRxiv : the preprint server for biology · 2025Article
- Article
- Analytical assessment of metagenomic workflows for pathogen detection with NIST RM 8376 and two sample matrices.Microbiology spectrum · 2025Article
- Absolute quantification of the living skin microbiome overcomes relic-DNA bias and reveals specific patterns across volunteers.Microbiome · 2025Article
- Absolute abundance unveils Basidiobolus as a cross-domain bridge indirectly bolstering gut microbiome homeostasis.The ISME journal · 2025Article
- Dental caries shallow-layer microbe harvest and data display method shows taxa pre-harvest spatial positions, absolute and relative abundance and diversity related to lesion pulpal depth.Journal of oral microbiology · 2025Article
- Assessment of absolute abundance in mother-infant gut microbiome using marine-sourced bacterial DNA spike-in and comparison with conventional quantification methods.Microbiome research reports · 2025Article
- Synthetic DNA spike-in standards for cross-domain absolute quantification of microbiomes by rRNA gene amplicon sequencing.ISME communications · 2025Article
- Perspective: Current Scientific Evidence and Research Strategies in the Role of Almonds in Cardiometabolic Health.Current developments in nutrition · 2025Article
- The indoors microbiome and human health.Nature reviews. Microbiology · 2024Review
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Microbiome studies have the common goal of determining which microbial taxa are present, respond to specific conditions, or promote phenotypic changes in the host. Most of these studies rely on relative abundance measurements to drive conclusions. Inherent limitations of relative values are the inability to determine whether an individual taxon is more or less abundant and the magnitude of this change between the two samples. These limitations can be overcome by using absolute abundance quantifications, which can allow for a more complete understanding of community dynamics by measuring variations in total microbial loads. Obtaining absolute abundance measurements is still technically challenging. Here, we developed synthetic DNA (synDNA) spike-ins that enable precise and cost-effective absolute quantification of microbiome data by adding defined amounts of synDNAs to the samples. We designed 10 synDNAs with the following features: 2,000-bp length, variable GC content (26, 36, 46, 56, or 66% GC), and negligible identity to sequences found in the NCBI database. Dilution pools were generated by mixing the 10 synDNAs at different concentrations. Shotgun metagenomic sequencing showed that the pools of synDNAs with different percentages of GC efficiently reproduced the serial dilution, showing high correlation (
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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.