ArticleBMC microbiology2016
Determining Streptococcus suis serotype from short-read whole-genome sequencing data.
Article in BMC microbiology, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 73 papers, 1 of them a synthesis that pooled it.
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Who cites it
73 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Molecular Epidemiology of Underreported Emerging Zoonotic Pathogen Streptococcus suis in Europe.Emerging infectious diseases · 2024Pooled it
- Meningitis in a French pig farmer caused by a serotype 2ASM case reports · 2026Article
- Serum IgA and bactericidal immunity against Streptococcus suis serotype 2 is increasing between 2 and 6 weeks of age in a farm with autogenous bacterin vaccination pre-farrowing, while specific maternal IgG is decreasing.Porcine health management · 2026Article
- Genomics of Irish swine-derivedMicrobial genomics · 2026Article
- Genomic re-evaluation of clinical isolates reveals a structuredJournal of clinical microbiology · 2025Article
- Streptococcus suis avian expansion suggests shared antibiotic use drives host jumps.BMC biology · 2025Article
- Tyrosine kinase Cps2C regulates the synthesis of capsular polysaccharides and plays a role in the virulence ofVirulence · 2025Article
- Challenges and Opportunities of Bacterial Vaccines as Alternatives to Antimicrobials in Swine Health Management: Insights from U.S. Veterinarians.Pathogens (Basel, Switzerland) · 2025Article
- Characterization of an enterococcal phage endolysin as a potential antimicrobial agent against Streptococcus suis.Veterinary research · 2025Article
- Pan-immune system, mobilome and resistome inMicrobial genomics · 2025Article
- Human Streptococcus suis Infections, South America, 1995-2024.Emerging infectious diseases · 2025Review
- Population Genomics, Virulence Traits, and Antimicrobial Resistance ofMicroorganisms · 2025Article
- Establishment of a rapid RAA-CRISPR/Cas12a system targeting the recN gene for on-site detection of Streptococcus suis in livestock and fresh pork meat.Functional & integrative genomics · 2025Article
- Development of a recombinase polymerase amplification nucleic acid lateral flow assay for detecting Streptococcus suis serotype 2 in pork.Scientific reports · 2025Article
- Development of a high-throughput MassARRAY-based single assay for the characterization of Streptococcus suis species and serotypes.Scientific reports · 2025Article
- Genomic analysis and virulence of human Streptococcus suis serotype 14.European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology · 2025Article
- Article
- Isolation of phages infecting the zoonotic pathogenbioRxiv : the preprint server for biology · 2025Article
- Article
- Molecular characterization of Streptococcus suis isolates recovered from diseased pigs in Europe.Veterinary research · 2024Article
13 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundStreptococcus suis is divided into 29 serotypes based on a serological reaction against the capsular polysaccharide (CPS). Multiplex PCR tests targeting the cps locus are also used to determine S. suis serotypes, but they cannot differentiate between serotypes 1 and 14, and between serotypes 2 and 1/2. Here, we developed a pipeline permitting in silico serotype determination from whole-genome sequencing (WGS) short-read data that can readily identify all 29 S. suis serotypes.
resultsWe sequenced the genomes of 121 strains representing all 29 known S. suis serotypes. We next combined available software into an automated pipeline permitting in silico serotyping of strains by differential alignment of short-read sequencing data to a custom S. suis cps loci database. Strains of serotype pairs 1 and 14, and 2 and 1/2 could be differentiated by a missense mutation in the cpsK gene. We report a 99 % match between coagglutination- and pipeline-determined serotypes for strains in our collection. We used 375 additional S. suis genomes downloaded from the NCBI's Sequence Read Archive (SRA) to validate the pipeline. Validation with SRA WGS data resulted in a 92 % match. Included pipeline subroutines permitted us to assess strain virulence marker content and obtain multilocus sequence typing directly from WGS data.
conclusionsOur pipeline permits rapid and accurate determination of S. suis serotype, and other lineage information, directly from WGS data. By discriminating between serotypes 1 and 14, and between serotypes 2 and 1/2, our approach solves a three-decade longstanding S. suis typing issue.
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