ArticleNucleic acids research2016
HGTree: database of horizontally transferred genes determined by tree reconciliation.
Article in Nucleic acids research, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed.
- Targeting Horizontal Gene Transfer to Combat Antimicrobial Resistance: A Review of Mechanisms, Drivers, and Multi-Omics Strategies.Infection and drug resistance · 2026Review
- Role of horizontal gene transfer and cooperation in rhizosphere microbiome assembly.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2025Review
- Independent evolution of oleate hydratase clades in Bacillales reflects molecular convergence.Frontiers in molecular biosciences · 2024Article
- HGTree v2.0: a comprehensive database update for horizontal gene transfer (HGT) events detected by the tree-reconciliation method.Nucleic acids research · 2023Article
- Biodiversity-based development and evolution: the emerging research systems in model and non-model organisms.Science China. Life sciences · 2021Review
- Ten Years of Collaborative Progress in the Quest for Orthologs.Molecular biology and evolution · 2021Article
- Evidence for the Rapid and Divergent Evolution of Mycoplasmas: Structural and Phylogenetic Analysis of Enolases.Frontiers in molecular biosciences · 2021Article
- ARTS 2.0: feature updates and expansion of the Antibiotic Resistant Target Seeker for comparative genome mining.Nucleic acids research · 2020Article
- Bacterial Origin and Reductive Evolution of the CPR Group.Genome biology and evolution · 2020Article
- Review
- Genomic Characteristics Distinguish Geographically DistributedFrontiers in microbiology · 2020Article
- Horizontal gene transfer in human-associated microorganisms inferred by phylogenetic reconstruction and reconciliation.Scientific reports · 2019Article
- Antibiotic Treatment Drives the Diversification of the Human Gut Resistome.Genomics, proteomics & bioinformatics · 2019Article
- RANGER-DTL 2.0: rigorous reconstruction of gene-family evolution by duplication, transfer and loss.Bioinformatics (Oxford, England) · 2018Article
- Genomic organization underlying deletional robustness in bacterial metabolic systems.Proceedings of the National Academy of Sciences of the United States of America · 2018Article
- The first whole transcriptomic exploration of pre-oviposited early chicken embryos using single and bulked embryonic RNA-sequencing.GigaScience · 2018Article
- HTT-DB: new features and updates.Database : the journal of biological databases and curation · 2018Article
- Manifold Routes to a Nucleus.Frontiers in microbiology · 2018Article
- A Novel Strategy for Detecting Recent Horizontal Gene Transfer and Its Application toFrontiers in microbiology · 2018Article
- Article
Corrections and comments
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Authors and funding
9 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The HGTree database provides putative genome-wide horizontal gene transfer (HGT) information for 2472 completely sequenced prokaryotic genomes. This task is accomplished by reconstructing approximate maximum likelihood phylogenetic trees for each orthologous gene and corresponding 16S rRNA reference species sets and then reconciling the two trees under parsimony framework. The tree reconciliation method is generally considered to be a reliable way to detect HGT events but its practical use has remained limited because the method is computationally intensive and conceptually challenging. In this regard, HGTree (http://hgtree.snu.ac.kr) represents a useful addition to the biological community and enables quick and easy retrieval of information for HGT-acquired genes to better understand microbial taxonomy and evolution. The database is freely available and can be easily scaled and updated to keep pace with the rapid rise in genomic information.
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Registered trials
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