ArticleNucleic acids research2015
Islander: a database of precisely mapped genomic islands in tRNA and tmRNA genes.
Article in Nucleic acids research, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 62 papers.
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Who cites it
62 citing papers in PubMed, 124 citations in OpenAlex.
- Fast, flexible gene cluster family delineation with IGUA.Nucleic acids research · 2026Article
- Integrase-On-Demand: bioprospecting integrases for targeted genomic insertion of genetic cargo.Nucleic acids research · 2026Article
- A machine learning framework for interpreting phylogenetic tree patterns in interkingdom horizontal gene transfer.Frontiers in bioinformatics · 2026Article
- Genomic data representations for horizontal gene transfer detection.NAR genomics and bioinformatics · 2025Article
- Jumbo phage-mediated transduction of genomic islands.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Exploring phage-host interactions inMicrobiology spectrum · 2025Article
- The TIGER/Islander resource for genomic islands.Microbiology resource announcements · 2025Article
- Dark Matter Carried byInternational journal of molecular sciences · 2025Article
- The environmental adaptation of acidophilic archaea: promotion of horizontal gene transfer by genomic islands.BMC genomics · 2025Article
- MOBHunter: a data integration platform for identification and classification of mobile genetic elements in microbial genomes.Nucleic acids research · 2025Article
- Current state and future prospects of Horizontal Gene Transfer detection.NAR genomics and bioinformatics · 2025Review
- Expansion of the tmRNA sequence database and new tools for search and visualization.NAR genomics and bioinformatics · 2025Article
- Hot Spots of Site-Specific Integration into theInternational journal of molecular sciences · 2024Article
- Genomic diversity, antibiotic resistance, and virulence in South African Enterococcus faecalis and Enterococcus lactis isolates.World journal of microbiology & biotechnology · 2024Article
- From whole genomes to probiotic candidates: A study of potential lactobacilli strains selection for vaginitis treatment.Heliyon · 2024Article
- A comprehensive comparative genomic analysis revealed that plant growth promoting traits are ubiquitous in strains ofFrontiers in microbiology · 2024Article
- Speeding genomic island discovery through systematic design of reference database composition.PloS one · 2024Article
- Discovering genomic islands in unannotated bacterial genomes using sequence embedding.Bioinformatics advances · 2024Article
- A systematic approach to classify and characterize genomic islands driven by conjugative mobility using protein signatures.Nucleic acids research · 2023Article
- Helper-embedded satellites from an integrase clade that repeatedly targets prophage late genes.NAR genomics and bioinformatics · 2023Article
2 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Genomic islands are mobile DNAs that are major agents of bacterial and archaeal evolution. Integration into prokaryotic chromosomes usually occurs site-specifically at tRNA or tmRNA gene (together, tDNA) targets, catalyzed by tyrosine integrases. This splits the target gene, yet sequences within the island restore the disrupted gene; the regenerated target and its displaced fragment precisely mark the endpoints of the island. We applied this principle to search for islands in genomic DNA sequences. Our algorithm identifies tDNAs, finds fragments of those tDNAs in the same replicon and removes unlikely candidate islands through a series of filters. A search for islands in 2168 whole prokaryotic genomes produced 3919 candidates. The website Islander (recently moved to http://bioinformatics.sandia.gov/islander/) presents these precisely mapped candidate islands, the gene content and the island sequence. The algorithm further insists that each island encode an integrase, and attachment site sequence identity is carefully noted; therefore, the database also serves in the study of integrase site-specificity and its evolution.
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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.