ArticleJournal of clinical microbiology2019
Hash-Based Core Genome Multilocus Sequence Typing for Clostridium difficile.
Article in Journal of clinical microbiology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed.
- refMLST: reference-based multilocus sequence typing enables universal bacterial typing.BMC bioinformatics · 2024Article
- Comparative Genomics of Clostridioides difficile.Advances in experimental medicine and biology · 2024Article
- Core genome multilocus sequence typing of Clostridioides difficile to investigate transmission in the hospital setting.European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology · 2023Article
- Update on Commonly Used Molecular Typing Methods forMicroorganisms · 2023Review
- Delineating Mycobacterium abscessus population structure and transmission employing high-resolution core genome multilocus sequence typing.Nature communications · 2022Article
- Infection prevention and control insights from a decade of pathogen whole-genome sequencing.The Journal of hospital infection · 2022Review
- K-mer based prediction ofMicrobial genomics · 2022Article
- Comparison of Whole-Genome Sequence-Based Methods and PCR Ribotyping for Subtyping of Clostridioides difficile.Journal of clinical microbiology · 2022Article
- Establishment of a Publicly Available Core Genome Multilocus Sequence Typing Scheme for Clostridium perfringens.Microbiology spectrum · 2021Article
- Establishment and Evaluation of a Core Genome Multilocus Sequence Typing Scheme for Whole-Genome Sequence-Based Typing of Pseudomonas aeruginosa.Journal of clinical microbiology · 2021Article
- Decentralized Investigation of Bacterial Outbreaks Based on Hashed cgMLST.Frontiers in microbiology · 2021Article
- Transition From PCR-Ribotyping to Whole Genome Sequencing Based Typing ofFrontiers in cellular and infection microbiology · 2021Article
- A publicly accessible database forMicrobial genomics · 2020Article
- Whole genome sequencing of Clostridioides difficile PCR ribotype 046 suggests transmission between pigs and humans.PloS one · 2020Article
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Pathogen whole-genome sequencing has huge potential as a tool to better understand infection transmission. However, rapidly identifying closely related genomes among a background of thousands of other genomes is challenging. Here, we describe a refinement to core genome multilocus sequence typing (cgMLST) in which alleles at each gene are reproducibly converted to a unique hash, or short string of letters (hash-cgMLST). This avoids the resource-intensive need for a single centralized database of sequentially numbered alleles. We test the reproducibility and discriminatory power of cgMLST/hash-cgMLST compared to those of mapping-based approaches in
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