ArticleMolecular biology and evolution2012
Replacing and additive horizontal gene transfer in Streptococcus.
Article in Molecular biology and evolution, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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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
22 citing papers in PubMed, 47 citations in OpenAlex.
- Metabolite correlation networks reveal complex phenotypes of adaptation-driving mutations.Nature communications · 2026Article
- Genome-wide characteristics, antibiotic resistance, and pathogenicity analysis of Streptococcus parasuis strains isolated from diseased pigs.BMC microbiology · 2026Article
- HGTs are not SPRs: In the Presence of Ghost Lineages, Series of Horizontal Gene Transfers do not Result in Series of Subtree Pruning and Regrafting.Molecular biology and evolution · 2025Article
- High prevalence of antibiotic resistance ofJournal of oral microbiology · 2025Article
- Investigating Additive and Replacing Horizontal Gene Transfers Using Phylogenies and Whole Genomes.Genome biology and evolution · 2024Article
- Flexible genomic island conservation across freshwater and marine Methylophilaceae.The ISME journal · 2024Article
- Incidence, seasonal pattern, and clinical manifestations of Streptococcus dysgalactiae subspecies equisimilis bacteremia; a population-based study.European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology · 2023Article
- Leaky barriers to gene sharing between locally co-existing coagulase-negative Staphylococcus species.Communications biology · 2023Article
- Major risk factors for Streptococcus dysgalactiae subsp. equisimilis bacteremia: a population-based study.BMC infectious diseases · 2023Article
- Assessment of the Relationship between Clinical Manifestation and Pathogenic Potential ofBiomedicines · 2022Article
- Transposable elements promote the evolution of genome streamlining.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2022Article
- Indirect identification of horizontal gene transfer.Journal of mathematical biology · 2021Article
- Can mobile genetic elements rescue genes from extinction?Current genetics · 2020Review
- Slightly beneficial genes are retained by bacteria evolving DNA uptake despite selfish elements.eLife · 2020Article
- Microbial genomic island discovery, visualization and analysis.Briefings in bioinformatics · 2019Review
- Molecular Epidemiology, Ecology, and Evolution of Group A Streptococci.Microbiology spectrum · 2018Review
- Temporal trends of β-haemolytic streptococcal osteoarticular infections in western Norway.BMC infectious diseases · 2016Article
- Population genomics reveals additive and replacing horizontal gene transfers in the emerging pathogen Dickeya solani.BMC genomics · 2015Article
- Draft Genome Sequences of Four Genetically Distinct Human Isolates of Streptococcus dysgalactiae subsp. equisimilis.Genome announcements · 2015Article
- Molecular epidemiology and genomics of group A Streptococcus.Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases · 2015Review
Corrections and comments
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Authors and funding
6 authors at 1 institution in 1 country.
Funding
Abstract
The prominent role of Horizontal Gene Transfer (HGT) in the evolution of bacteria is now well documented, but few studies have differentiated between evolutionary events that predominantly cause genes in one lineage to be replaced by homologs from another lineage ("replacing HGT") and events that result in the addition of substantial new genomic material ("additive HGT"). Here in, we make use of the distinct phylogenetic signatures of replacing and additive HGTs in a genome-wide study of the important human pathogen Streptococcus pyogenes (SPY) and its close relatives S. dysgalactiae subspecies equisimilis (SDE) and S. dysgalactiae subspecies dysgalactiae (SDD). Using recently developed statistical models and computational methods, we find evidence for abundant gene flow of both kinds within each of the SPY and SDE clades and of reduced levels of exchange between SPY and SDD. In addition, our analysis strongly supports a pronounced asymmetry in SPY-SDE gene flow, favoring the SPY-to-SDE direction. This finding is of particular interest in light of the recent increase in virulence of pathogenic SDE. We find much stronger evidence for SPY-SDE gene flow among replacing than among additive transfers, suggesting a primary influence from homologous recombination between co-occurring SPY and SDE cells in human hosts. Putative virulence genes are correlated with transfer events, but this correlation is found to be driven by additive, not replacing, HGTs. The genes affected by additive HGTs are enriched for functions having to do with transposition, recombination, and DNA integration, consistent with previous findings, whereas replacing HGTs seen to influence a more diverse set of genes. Additive transfers are also found to be associated with evidence of positive selection. These findings shed new light on the manner in which HGT has shaped pathogenic bacterial genomes.
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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.