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. 2023 Dec;44(12):2059-2061.
doi: 10.1017/ice.2023.85. Epub 2023 Jun 13.

Whole-genome sequencing rule-out of suspected hospital-onset Rhizopus outbreaks

Victoria T Chu #  1 , Saba Nafees #  2 , Eric Waltari #  2 , Nicole McNeil  3 , Carolyn Caughell  3 , Estella Sanchez-Guerrero  4 , Lusha Wang  3 , Kim Stanley  3 , Gail Cunningham  5 , Joan Wong  2 , Maíra Phelps  2 , Cristina M Tato  2 , Steve Miller  6 , Joseph L DeRisi  2   7 , Deborah S Yokoe  3   4 , Lynn Ramirez-Avila  1   3 , Charles R Langelier  2   3   4
Affiliations

Whole-genome sequencing rule-out of suspected hospital-onset Rhizopus outbreaks

Victoria T Chu et al. Infect Control Hosp Epidemiol. 2023 Dec.

Abstract

Two independent temporal-spatial clusters of hospital-onset Rhizopus infections were evaluated using whole-genome sequencing (WGS). Phylogenetic analysis confirmed that isolates within each cluster were unrelated despite epidemiological suspicion of outbreaks. The ITS1 region alone was insufficient for accurate analysis. WGS has utility for rapid rule-out of suspected nosocomial Rhizopus outbreaks.

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Conflict of interest statement

All authors report no conflicts of interest relevant to this article.

Figures

Figure 1.
Figure 1.
(A) Maximum likelihood phylogenetic tree of all 5 patients from Rhizopus clusters A and B, based on whole-genome sequencing (WGS), created with RAxML. An historical control (HCtrl) R. microsporus isolate was also included. Scale bar represents 1 SNP/kb. (B) Heatmap demonstrating WGS-derived single-nucleotide polymorphism (SNP) distances between isolates. (C) Heatmap demonstrating ITS1-derived SNP distances between isolates, with a R. oryzae ITS1 reference.
See this image and copyright information in PMC

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