ArticleJournal of clinical microbiology2015
Salmonella serotype determination utilizing high-throughput genome sequencing data.
Article in Journal of clinical microbiology, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 254 papers.
What it found
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Who cites it
254 citing papers in PubMed, 419 citations in OpenAlex.
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- Antimicrobial resistance and genomic characterization ofFrontiers in microbiology · 2026Article
- Predominance of antimicrobial resistance genes and high-risk clones among Gram negatives from clinical sources in Accra-Ghana.PloS one · 2026Article
- Using metagenomics and whole-genome sequencing to characterize enteric pathogens across various sources in Africa.Nature communications · 2025Article
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- Draft genome sequences of Salmonella enterica subsp. enterica isolates from fresh produce and agricultural environments in South Korea.BMC research notes · 2025Article
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- Characterization of Salmonella adaptation in response to phage treatment in broiler chickens.Veterinary research · 2025Article
- Article
194 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
9 authors at 6 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Serotyping forms the basis of national and international surveillance networks for Salmonella, one of the most prevalent foodborne pathogens worldwide (1-3). Public health microbiology is currently being transformed by whole-genome sequencing (WGS), which opens the door to serotype determination using WGS data. SeqSero (www.denglab.info/SeqSero) is a novel Web-based tool for determining Salmonella serotypes using high-throughput genome sequencing data. SeqSero is based on curated databases of Salmonella serotype determinants (rfb gene cluster, fliC and fljB alleles) and is predicted to determine serotype rapidly and accurately for nearly the full spectrum of Salmonella serotypes (more than 2,300 serotypes), from both raw sequencing reads and genome assemblies. The performance of SeqSero was evaluated by testing (i) raw reads from genomes of 308 Salmonella isolates of known serotype; (ii) raw reads from genomes of 3,306 Salmonella isolates sequenced and made publicly available by GenomeTrakr, a U.S. national monitoring network operated by the Food and Drug Administration; and (iii) 354 other publicly available draft or complete Salmonella genomes. We also demonstrated Salmonella serotype determination from raw sequencing reads of fecal metagenomes from mice orally infected with this pathogen. SeqSero can help to maintain the well-established utility of Salmonella serotyping when integrated into a platform of WGS-based pathogen subtyping and characterization.
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