ArticleScientific reports2016
PGAdb-builder: A web service tool for creating pan-genome allele database for molecular fine typing.
Article in Scientific reports, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.
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Who cites it
26 citing papers in PubMed.
- Characterisation of Salmonella Typhimurium from a fatal equine nosocomial outbreak and retrospective analysis of equine clinic salmonellosis cases (2010-2025).Scientific reports · 2026Article
- Pan-genomics: Insight into the Functional Genome, Applications, Advancements, and Challenges.Current genomics · 2025Review
- Unraveling the role of mobile genetic elements in antibiotic resistance transmission and defense strategies in bacteria.Frontiers in systems biology · 2025Review
- Insights on the genomic diversity, virulence and resistance profile of a Campylobacter jejuni strain isolated from a hospitalized patient in Brazil.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2024Article
- Article
- High-Throughput Short Sequence Typing Schemes forMicroorganisms · 2023Article
- ProbioMinServer: an integrated platform for assessing the safety and functional properties of potential probiotic strains.Bioinformatics advances · 2023Article
- Review
- Article
- A High-Throughput Short Sequence Typing Scheme for Serratia marcescens Pure Culture and Environmental DNA.Applied and environmental microbiology · 2021Article
- Pan-Genome of NovelMicroorganisms · 2021Article
- Article
- Pan-Genome-Wide Analysis ofFrontiers in microbiology · 2021Article
- Comparative Genomic Analysis Provides Insights into the Phylogeny, Resistome, Virulome, and Host Adaptation in the GenusPathogens (Basel, Switzerland) · 2020Article
- Activity of Imipenem-Relebactam and Meropenem-Vaborbactam against Carbapenem-Resistant, SME-Producing Serratia marcescens.Antimicrobial agents and chemotherapy · 2020Article
- Phylogenetic analysis revealed that Salmonella Typhimurium ST313 isolated from humans and food in Brazil presented a high genomic similarity.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2020Article
- Whole-Genome Sequencing of Corynebacterium diphtheriae Isolates Recovered from an Inner-City Population Demonstrates the Predominance of a Single Molecular Strain.Journal of clinical microbiology · 2020Article
- Genomic Characterization of Multidrug-ResistantFrontiers in microbiology · 2020Article
- Pangenome of Serratia marcescens strains from nosocomial and environmental origins reveals different populations and the links between them.Scientific reports · 2019Article
- Persistent Infection and Long-Term Carriage of Typhoidal and Nontyphoidal Salmonellae.Clinical microbiology reviews · 2019Review
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
With the advance of next generation sequencing techniques, whole genome sequencing (WGS) is expected to become the optimal method for molecular subtyping of bacterial isolates. To use WGS as a general subtyping method for disease outbreak investigation and surveillance, the layout of WGS-based typing must be comparable among laboratories. Whole genome multilocus sequence typing (wgMLST) is an approach that achieves this requirement. To apply wgMLST as a standard subtyping approach, a pan-genome allele database (PGAdb) for the population of a bacterial organism must first be established. We present a free web service tool, PGAdb-builder (http://wgmlstdb.imst.nsysu.edu.tw), for the construction of bacterial PGAdb. The effectiveness of PGAdb-builder was tested by constructing a pan-genome allele database for Salmonella enterica serovar Typhimurium, with the database being applied to create a wgMLST tree for a panel of epidemiologically well-characterized S. Typhimurium isolates. The performance of the wgMLST-based approach was as high as that of the SNP-based approach in Leekitcharoenphon's study used for discerning among epidemiologically related and non-related isolates.
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