ArticleScientific reports2019
Horizontal gene transfer in human-associated microorganisms inferred by phylogenetic reconstruction and reconciliation.
Article in Scientific reports, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 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
36 citing papers in PubMed, 77 citations in OpenAlex.
- Microbial transmission and ecology of human and environmental microbial communities in childcare centers.Research square · 2026Article
- Characterization of microbial dark matter at scale with MetaSBT and taxonomy-aware Sequence Bloom Trees.Nature biotechnology · 2026Article
- Arboreal networks and their underlying trees.Journal of mathematical biology · 2026Article
- Co-occurrence is associated with horizontal gene transfer across marine bacteria independent of phylogeny.The ISME journal · 2026Article
- One Health, One Microbiome.Microbiome · 2025Review
- Co-occurrence is associated with horizontal gene transfer across marine bacteria independent of phylogeny.bioRxiv : the preprint server for biology · 2025Article
- Towards airway microbiome engineering for improving respiratory health.Advanced drug delivery reviews · 2025Review
- Characterization of microbial dark matter at scale with MetaSBT and taxonomy-aware Sequence Bloom Trees.bioRxiv : the preprint server for biology · 2025Article
- Article
- Article
- Profiling lateral gene transfer events in the human microbiome using WAAFLE.Nature microbiology · 2025Article
- Are Viruses Taxonomic Units? A Protein Domain and Loop-Centric Phylogenomic Assessment.Viruses · 2024Review
- Macrolide Resistance in theAntibiotics (Basel, Switzerland) · 2024Article
- A global survey of prokaryotic genomes reveals the eco-evolutionary pressures driving horizontal gene transfer.Nature ecology & evolution · 2024Article
- Horizontal gene transfer after faecal microbiota transplantation in adolescents with obesity.Microbiome · 2024Article
- Evolutionary history and origins of Dsr-mediated sulfur oxidation.The ISME journal · 2024Article
- The Distribution of Eight Antimicrobial Resistance Genes inTropical medicine and infectious disease · 2023Article
- High-throughput microbial culturomics using automation and machine learning.Nature biotechnology · 2023Article
- Microbial applications for sustainable space exploration beyond low Earth orbit.NPJ microgravity · 2023Review
- A critical analysis of the current state of virus taxonomy.Frontiers in microbiology · 2023Review
Corrections and comments
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Authors and funding
5 authors at 4 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Horizontal gene transfer (HGT) is widespread in the evolution of prokaryotes, especially those associated with the human body. Here, we implemented large-scale gene-species phylogenetic tree reconstructions and reconciliations to identify putative HGT-derived genes in the reference genomes of microbiota isolated from six major human body sites by the NIH Human Microbiome Project. Comparisons with a control group representing microbial genomes from diverse natural environments indicated that HGT activity increased significantly in the genomes of human microbiota, which is confirmatory of previous findings. Roughly, more than half of total genes in the genomes of human-associated microbiota were transferred (donated or received) by HGT. Up to 60% of the detected HGTs occurred either prior to the colonization of the human body or involved bacteria residing in different body sites. The latter could suggest 'genetic crosstalk' and movement of bacterial genes within the human body via hitherto poorly understood mechanisms. We also observed that HGT activity increased significantly among closely-related microorganisms and especially when they were united by physical proximity, suggesting that the 'phylogenetic effect' can significantly boost HGT activity. Finally, we identified several core and widespread genes least influenced by HGT that could become useful markers for building robust 'trees of life' and address several outstanding technical challenges to improve the phylogeny-based genome-wide HGT detection method for future applications.
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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.