ArticleJournal of clinical microbiology2014
New clustered regularly interspaced short palindromic repeat locus spacer pair typing method based on the newly incorporated spacer for Salmonella enterica.
Article in Journal of clinical microbiology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
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Who cites it
10 citing papers in PubMed.
- CRISPR Typing of Clinical Strains ofIranian journal of public health · 2023Article
- Comparison of Conventional Molecular and Whole-Genome Sequencing Methods for DifferentiatingMicroorganisms · 2021Article
- Antimicrobial Resistance and CRISPR Typing AmongFrontiers in microbiology · 2021Article
- Utilization of Clustered Regularly Interspaced Short Palindromic Repeats to GenotypeFrontiers in microbiology · 2020Article
- CSESA: an R package to predict Salmonella enterica serotype based on newly incorporated spacer pairs of CRISPR.BMC bioinformatics · 2019Article
- Article
- Bacterial CRISPR Regions: General Features and their Potential for Epidemiological Molecular Typing Studies.The open microbiology journal · 2018Review
- Global MLST of Salmonella Typhi Revisited in Post-genomic Era: Genetic Conservation, Population Structure, and Comparative Genomics of Rare Sequence Types.Frontiers in microbiology · 2016Article
- CRISPR-cas subtype I-Fb in Acinetobacter baumannii: evolution and utilization for strain subtyping.PloS one · 2015Article
- Polymorphism of CRISPR shows separated natural groupings of Shigella subtypes and evidence of horizontal transfer of CRISPR.RNA biology · 2015Article
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Authors and funding
17 authors.
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Abstract
A clustered regularly interspaced short palindromic repeat (CRISPR) typing method has recently been developed and used for typing and subtyping of Salmonella spp., but it is complicated and labor intensive because it has to analyze all spacers in two CRISPR loci. Here, we developed a more convenient and efficient method, namely, CRISPR locus spacer pair typing (CLSPT), which only needs to analyze the two newly incorporated spacers adjoining the leader array in the two CRISPR loci. We analyzed a CRISPR array of 82 strains belonging to 21 Salmonella serovars isolated from humans in different areas of China by using this new method. We also retrieved the newly incorporated spacers in each CRISPR locus of 537 Salmonella isolates which have definite serotypes in the Pasteur Institute's CRISPR Database to evaluate this method. Our findings showed that this new CLSPT method presents a high level of consistency (kappa = 0.9872, Matthew's correlation coefficient = 0.9712) with the results of traditional serotyping, and thus, it can also be used to predict serotypes of Salmonella spp. Moreover, this new method has a considerable discriminatory power (discriminatory index [DI] = 0.8145), comparable to those of multilocus sequence typing (DI = 0.8088) and conventional CRISPR typing (DI = 0.8684). Because CLSPT only costs about $5 to $10 per isolate, it is a much cheaper and more attractive method for subtyping of Salmonella isolates. In conclusion, this new method will provide considerable advantages over other molecular subtyping methods, and it may become a valuable epidemiologic tool for the surveillance of Salmonella infections.
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