ArticleNucleic acids research2016
Identification and analysis of integrons and cassette arrays in bacterial genomes.
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 165 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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
165 citing papers in PubMed, 320 citations in OpenAlex.
- Global Distribution and Co-occurrence of Antimicrobial, Biocide, and Metal Resistance Genes in 11,921 Acinetobacter baumannii Genomes.Current microbiology · 2026Article
- Genomic architecture of antimicrobial resistance and mobile genetic elements inMicrobiology spectrum · 2026Article
- High-throughput recovery of integron cassettes for gene discovery screens.Nature microbiology · 2026Article
- Seasonal Occurrence, Population Diversity, and Mobilome Features of EnvironmentalMicroorganisms · 2026Article
- Uncovering species- and drug-class-specific antimicrobial resistance mechanisms from large-scale whole-genome sequencing data using discordance analysis and machine learning.Briefings in bioinformatics · 2026Article
- Mobile genetic elements shape microbial diversity and functions in thawing permafrost soils.Nature microbiology · 2026Article
- National genomic surveillance reveals global plasmid and chromosomal dissemination routes of blanpj antimicrobials and resistance · 2026Article
- Strategies for integrating whole-genome sequencing into antimicrobial resistance surveillance.BMC genomics · 2026Review
- Antimicrobial Resistance Gene Profiles in Integron-Positive and Integron-Negative Third-Generation Cephalosporin-ResistantAntibiotics (Basel, Switzerland) · 2026Article
- Mobile Genetic Elements as Central Drivers of Antimicrobial Resistance: Molecular Mechanisms, Evolutionary Ecology, One Health Implications and Control Strategies.Antibiotics (Basel, Switzerland) · 2026Review
- Comparative genomics reveals synteny-guided remodeling of carbohydrate-foraging and intrinsic resistance in an ocular Chryseobacterium isolate, NG-CE01.BMC microbiology · 2026Article
- Mapping 25 years of research on gut microbiota and antibiotic resistance: bibliometric insights and future directions.European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology · 2026Review
- Whole-Genome Analysis of Multidrug-Resistant Escherichia coli from Bloodstream Infections in Iraqi Cancer Patients.Asian Pacific journal of cancer prevention : APJCP · 2026Article
- Characterization of the Chicken-Derived Riemerella anatipestifer Strains in Beijing and Fujian Provinces, China.Transboundary and emerging diseases · 2026Article
- Whole-genome characterisation of high-risk ST131 and the emerging ST1193 UPEC lineages in Romanian patients with recurrent urinary tract infections.Frontiers in microbiology · 2026Article
- Integrated genomic analysis ofFrontiers in microbiology · 2026Article
- Emergence and hospital dissemination of hypervirulent carbapenem-resistant Klebsiella pneumoniae lineages in eastern China.BMC microbiology · 2025Article
- Unraveling the Prevalence and Multifaceted Roles of Accessory Peptide Deformylases in Bacterial Adaptation and Resistance.Molecular biology and evolution · 2025Article
- Bacterial natural transformation drives cassette shuffling and simplifies recombination in chromosomal integrons.Nucleic acids research · 2025Article
- Snapshot Genomic Surveillance Reveals Insights into Antimicrobial Resistance and Lineage Diversity of Uropathogens in Older Adults in Queensland.Open forum infectious diseases · 2025Article
105 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
5 authors at 3 institutions in 1 country.
Funding
Abstract
Integrons recombine gene arrays and favor the spread of antibiotic resistance. Their broader roles in bacterial adaptation remain mysterious, partly due to lack of computational tools. We made a program - IntegronFinder - to identify integrons with high accuracy and sensitivity. IntegronFinder is available as a standalone program and as a web application. It searches for attC sites using covariance models, for integron-integrases using HMM profiles, and for other features (promoters, attI site) using pattern matching. We searched for integrons, integron-integrases lacking attC sites, and clusters of attC sites lacking a neighboring integron-integrase in bacterial genomes. All these elements are especially frequent in genomes of intermediate size. They are missing in some key phyla, such as α-Proteobacteria, which might reflect selection against cell lineages that acquire integrons. The similarity between attC sites is proportional to the number of cassettes in the integron, and is particularly low in clusters of attC sites lacking integron-integrases. The latter are unexpectedly abundant in genomes lacking integron-integrases or their remains, and have a large novel pool of cassettes lacking homologs in the databases. They might represent an evolutionary step between the acquisition of genes within integrons and their stabilization in the new genome.
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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.