Evaluation of polymerase chain reaction-based open reading frame typing method for the clonality investigation of Clostridioides difficile isolates

Yusuke Ota; Natsune Hongou; Yoko Nukui; Ryuji Koike; Shuji Tohda; Ryoichi Saito

doi:10.1016/j.anaerobe.2021.102462

Evaluation of polymerase chain reaction-based open reading frame typing method for the clonality investigation of Clostridioides difficile isolates

Anaerobe. 2021 Dec:72:102462. doi: 10.1016/j.anaerobe.2021.102462. Epub 2021 Sep 28.

Authors

Yusuke Ota¹, Natsune Hongou², Yoko Nukui³, Ryuji Koike⁴, Shuji Tohda⁵, Ryoichi Saito⁶

Affiliations

¹ Department of Molecular Microbiology, Graduate School of Medicine and Dental Science, Tokyo Medical and Dental University, 1-5-45 Yushima, Bunkyo-ku, Tokyo, 113-8510, Japan. Electronic address: y-ota.micr@tmd.ac.jp.
² Department of Molecular Microbiology, Graduate School of Medicine and Dental Science, Tokyo Medical and Dental University, 1-5-45 Yushima, Bunkyo-ku, Tokyo, 113-8510, Japan. Electronic address: 180312ts@tmd.ac.jp.
³ Department of Infection Control and Prevention, Tokyo Medical and Dental University Medical Hospital, 1-5-45 Yushima, Bunkyo-ku, Tokyo 113-8510, Japan. Electronic address: y-nukui.infe@tmd.ac.jp.
⁴ Clinical Research Center, Tokyo Medical and Dental University Medical Hospital, 1-5-45 Yushima, Bunkyo-ku, Tokyo, 113-8519, Japan. Electronic address: koike.rheu@tmd.ac.jp.
⁵ Department of Clinical Laboratory, Tokyo Medical and Dental University, 1-5-45 Yushima, Bunkyo-ku, Tokyo 113-8510, Japan. Electronic address: tohda.mlab@tmd.ac.jp.
⁶ Department of Molecular Microbiology, Graduate School of Medicine and Dental Science, Tokyo Medical and Dental University, 1-5-45 Yushima, Bunkyo-ku, Tokyo, 113-8510, Japan. Electronic address: r-saito.mi@tmd.ac.jp.

PMID: 34592472
DOI: 10.1016/j.anaerobe.2021.102462

Abstract

Here, we assessed the utility of a polymerase chain reaction-based open reading frame typing assay for investigating the clonality of Clostridioides difficile isolates. This assay has a higher discriminatory power than multi-locus sequence typing for molecular epidemiological analysis of C. difficile isolates and can provide additional information about toxin genotypes.

Keywords: Clostridioides difficile; PCR-Based open reading frame typing; Simpson's diversity index.

MeSH terms

Clostridioides difficile / classification*
Clostridioides difficile / genetics*
Clostridioides difficile / isolation & purification
Clostridium Infections / diagnosis*
Clostridium Infections / microbiology*
Humans
Multilocus Sequence Typing*
Open Reading Frames*
Phylogeny
Polymerase Chain Reaction* / methods
Reagent Kits, Diagnostic
Reproducibility of Results
Sensitivity and Specificity

Substances

Reagent Kits, Diagnostic