ArticleCell host & microbe2024
A metagenomics pipeline reveals insertion sequence-driven evolution of the microbiota.
Article in Cell host & microbe, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 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
16 citing papers in PubMed, 15 citations in OpenAlex.
- Antisense transcription reveals disease-associated adaptations in the human gut microbiome.Nature microbiology · 2026Article
- MetaCAT enables reconstruction of high-quality microbial genomes and their association with host traits from metagenomic data.Nature microbiology · 2026Article
- Insertion sequence elements associated with Staphylococcus epidermidis evolution in persistent orthopaedic device-related infections.BMC genomics · 2026Article
- Ancient Species Diversity and Niche Adaptation in Tannerella and Porphyromonas Revealed Through Pangenomics.Genome biology and evolution · 2026Article
- Comprehensive profiling of insertion sequences and eukaryotic-like transposons across archaeal genomes.BMC genomics · 2026Article
- Comprehensive characterization and genome-resolved insights into the probiotic potential of Bacillus sp. KNSH39 isolated from Litopenaeus vannamei intestine.World journal of microbiology & biotechnology · 2026Article
- Global emergence, evolution and international dissemination of the ST145 Klebsiella oxytoca lineage.npj antimicrobials and resistance · 2026Article
- Genetic Characteristics Associated with Probiotic Functions in Four Indonesian Skin Microbiome-Derived Bacterial Strains.Microorganisms · 2026Article
- HLRMDB: a comprehensive database of the human microbiome with metagenomic assembly, taxonomic classification, and functional annotation by analysis of long-read and hybrid sequencing data.Nucleic acids research · 2026Article
- Sulfonamide resistance geneMicrobiology spectrum · 2026Article
- Linezolid and levofloxacin: an uncommon pairing that suppresses evolution of resistance inFEMS microbes · 2026Article
- Ecological risk assessment of migratory bird feces in plateau wetland: Phosphorus speciation, ARGs, and pathogens.PloS one · 2026Article
- The role of mobile genetic elements in adaptation of the microbiota to the dynamic human gut ecosystem.Current opinion in microbiology · 2025Review
- De novo origin of numerous microproteins in enterobacteria.Nucleic acids research · 2025Article
- Mechanism of DNA degradation by CBASS Cap5 endonuclease immune effector.Nature communications · 2025Article
- Engineering Microbial Consortia as Living Materials: Advances and Prospectives.ACS synthetic biology · 2024Review
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Authors and funding
3 authors at 2 institutions in 1 country.
Funding
Abstract
Insertion sequence (IS) elements are mobile genetic elements in bacterial genomes that support adaptation. We developed a database of IS elements coupled to a computational pipeline that identifies IS element insertions in the microbiota. We discovered that diverse IS elements insert into the genomes of intestinal bacteria regardless of human host lifestyle. These insertions target bacterial accessory genes that aid in their adaptation to unique environmental conditions. Using IS expansion in Bacteroides, we show that IS activity leads to the insertion of "hot spots" in accessory genes. We show that IS insertions are stable and can be transferred between humans. Extreme environmental perturbations force IS elements to fall out of the microbiota, and many fail to rebound following homeostasis. Our work shows that IS elements drive bacterial genome diversification within the microbiota and establishes a framework for understanding how strain-level variation within the microbiota impacts human health.
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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 Socratic graph.