ArticleGenomics2008
Large-insert genome analysis technology detects structural variation in Pseudomonas aeruginosa clinical strains from cystic fibrosis patients.
Article in Genomics, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed.
- Opportunities and computational challenges in large-scale whole-genome sequencing data analysis.Journal of animal science · 2026Review
- Genetic Characteristics of Novel IncInfection and drug resistance · 2024Article
- Whole Genome Sequencing: Applications in Clinical Bacteriology.Medical principles and practice : international journal of the Kuwait University, Health Science Centre · 2024Review
- Molecular Characterization of Carbapenemase-Producing Pseudomonas aeruginosa of Czech Origin and Evidence for Clonal Spread of Extensively Resistant Sequence Type 357 Expressing IMP-7 Metallo-β-Lactamase.Antimicrobial agents and chemotherapy · 2017Article
- Genomic islands 1 and 2 play key roles in the evolution of extensively drug-resistant ST235 isolates of Pseudomonas aeruginosa.Open biology · 2016Article
- Tn6249, a new Tn6162 transposon derivative carrying a double-integron platform and involved with acquisition of the blaVIM-1 metallo-β-lactamase gene in Pseudomonas aeruginosa.Antimicrobial agents and chemotherapy · 2015Article
- A pangenomic analysis of the Nannochloropsis organellar genomes reveals novel genetic variations in key metabolic genes.BMC genomics · 2014Article
- Complete Genome Sequence of Highly Adherent Pseudomonas aeruginosa Small-Colony Variant SCV20265.Genome announcements · 2014Article
- Complete sequence of pOZ176, a 500-kilobase IncP-2 plasmid encoding IMP-9-mediated carbapenem resistance, from outbreak isolate Pseudomonas aeruginosa 96.Antimicrobial agents and chemotherapy · 2013Article
- Genome sequence of Francisella tularensis subspecies holarctica strain FSC200, isolated from a child with tularemia.Journal of bacteriology · 2012Article
- Strain-dependent diversity in the Pseudomonas aeruginosa quorum-sensing regulon.Proceedings of the National Academy of Sciences of the United States of America · 2012Article
- Diverse mobilized class 1 integrons are common in the chromosomes of pathogenic Pseudomonas aeruginosa clinical isolates.Antimicrobial agents and chemotherapy · 2012Article
- Article
- Genetic characterization indicates that a specific subpopulation of Pseudomonas aeruginosa is associated with keratitis infections.Journal of clinical microbiology · 2011Article
- Prevalence, conservation and functional analysis of Yersinia and Escherichia CRISPR regions in clinical Pseudomonas aeruginosa isolates.Microbiology (Reading, England) · 2011Article
- The accessory genome of Pseudomonas aeruginosa.Microbiology and molecular biology reviews : MMBR · 2010Review
- Tn6060, a transposon from a genomic island in a Pseudomonas aeruginosa clinical isolate that includes two class 1 integrons.Antimicrobial agents and chemotherapy · 2009Article
- Novel Tn4371-ICE like element in Ralstonia pickettii and genome mining for comparative elements.BMC microbiology · 2009Article
- Analysis of the genome of the Escherichia coli O157:H7 2006 spinach-associated outbreak isolate indicates candidate genes that may enhance virulence.Infection and immunity · 2009Article
- A draft genome sequence and functional screen reveals the repertoire of type III secreted proteins of Pseudomonas syringae pathovar tabaci 11528.BMC genomics · 2009Article
Corrections and comments
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Authors and funding
18 authors.
Funding
Abstract
Large-insert genome analysis (LIGAN) is a broadly applicable, high-throughput technology designed to characterize genome-scale structural variation. Fosmid paired-end sequences and DNA fingerprints from a query genome are compared to a reference sequence using the Genomic Variation Analysis (GenVal) suite of software tools to pinpoint locations of insertions, deletions, and rearrangements. Fosmids spanning regions that contain new structural variants can then be sequenced. Clonal pairs of Pseudomonas aeruginosa isolates from four cystic fibrosis patients were used to validate the LIGAN technology. Approximately 1.5 Mb of inserted sequences were identified, including 743 kb containing 615 ORFs that are absent from published P. aeruginosa genomes. Six rearrangement breakpoints and 220 kb of deleted sequences were also identified. Our study expands the "genome universe" of P. aeruginosa and validates a technology that complements emerging, short-read sequencing methods that are better suited to characterizing single-nucleotide polymorphisms than structural variation.
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