ArticleNPJ biofilms and microbiomes2025
High-resolution microbiome analysis of host-rich samples using 2bRAD-M without host depletion.
Article in NPJ biofilms and microbiomes, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.
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Who cites it
5 citing papers in PubMed.
- Characteristics of Placental Bacterial DNA Communities in Pregnant Women with Gestational Diabetes Mellitus and Association with Early Neonatal Gut Microbiota and Short-Term Perinatal Outcomes.Polish journal of microbiology · 2026Article
- [The Role of Salivary Microbiota in Oral and Systemic Disease Development and Diagnosis].Sichuan da xue xue bao. Yi xue ban = Journal of Sichuan University. Medical science edition · 2026Review
- Article
- Cervicovaginal microbiome alterations across HPV infection.Frontiers in cellular and infection microbiology · 2026Article
- Quantifying human-environment interactions through Bayesian modeling of species-resolved microbial transfer signatures: an exploratory proof-of-concept study.Frontiers in microbiology · 2026Article
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Authors and funding
16 authors.
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Abstract
Characterizing human microbiota in host-dominated samples is crucial for understanding host-microbe interactions, yet is challenged by the high host DNA context (HoC). Current depletion strategies are limited by DNA loss and require immediate processing. In this paper, we introduce 2bRAD-M, a reduced metagenomic sequencing method that enables efficient host-microbe analysis without prior host depletion. Validated on mock samples with >90% human DNA, 2bRAD-M achieved over 93% in AUPR and L2 similarity. In both saliva and oral cancer samples, 2bRAD-M closely matched WMS profiles; in the former, it captured diurnal and host-specific patterns with only 5-10% of the sequencing effort. In an early childhood caries (ECC) study, 2bRAD-M identified key bacterial indicators and distinguished ECC from healthy subjects (AUC = 0.92). By providing high-resolution microbial profiles without host depletion, 2bRAD-M offers a practical and efficient solution for HoC-challenged microbiome research.
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