Clade distribution of Candida auris in South Africa using whole genome sequencing of clinical and environmental isolates

References

• Jeffery-Smith A, et al. Candida auris: a review of the literature. Clin Microbiol Rev. 2018;31(1):1–18.
   Web of Science ®Google Scholar
• Chowdhary A, Sharma C, Meis JF. Candida auris: a rapidly emerging cause of hospital-acquired multidrug-resistant fungal infections globally. PLoS Pathog. 2017;13(5):e1006290.
   PubMed Web of Science ®Google Scholar
• Lockhart SR, et al. Simultaneous emergence of multidrug-resistant Candida auris on 3 continents confirmed by whole-genome sequencing and epidemiological analyses. Clin Infect Dis. 2017;64(2):134–140.
   PubMed Web of Science ®Google Scholar
• Schelenz S, et al. First hospital outbreak of the globally emerging Candida auris in a European hospital. Antimicrob Resist Infect Control. 2016;5:35.
   PubMed Web of Science ®Google Scholar
• Lee WG, et al. First three reported cases of nosocomial fungemia caused by Candida auris. J Clin Microbiol. 2011;49(9):3139–3142.
   PubMed Web of Science ®Google Scholar
• Arora P, et al. Environmental isolation of Candida auris from the Coastal Wetlands of Andaman Islands, India. mBio. 2021;12(2):e03181–20.
   PubMed Web of Science ®Google Scholar
• van Schalkwyk E, et al. Epidemiologic shift in Candidemia driven by Candida auris, South Africa, 2016–2017(1). Emerg Infect Dis. 2019;25(9):1698–1707.
   Web of Science ®Google Scholar
• Chow NA, et al. Potential fifth clade of Candida auris, Iran, 2018. Emerg Infect Dis. 2019;25(9):1780–1781.
   PubMed Web of Science ®Google Scholar
• Szekely A, Borman AM, Johnson EM. Candida auris isolates of the Southern Asian and South African lineages exhibit different phenotypic and antifungal susceptibility profiles in vitro. J Clin Microbiol. 2019;57(5):1–12.
   Web of Science ®Google Scholar
• Chow NA, et al. Tracing the evolutionary history and global expansion of Candida auris using population genomic analyses. mBio. 2020;11(2):1–15.
   Web of Science ®Google Scholar
• Govender NP, et al. Emergence of azole-resistant Candida parapsilosis causing bloodstream infection: results from laboratory-based sentinel surveillance in South Africa. J Antimicrob Chemother. 2016;71(7):1994–2004.
   Web of Science ®Google Scholar
• Magobo RE, et al. Candida auris–associated candidemia, South Africa. Emerging Infect. Dis.. 2014;20(7):1250.
   PubMed Web of Science ®Google Scholar
• Moema I IH, van Schalkwyk E, Shuping L, et al. Outbreak of culture-confirmed Candida auris bloodstream infection in the neonatal unit of a public-sector hospital, South Africa, July through September 2017.
   Google Scholar
• Institute CaLS. Reference method for broth dilution antifungal susceptibility testing of yeasts; approved standard – third edition M27-A3. 2008: CLSI, Wayne, PA, USA.
   Google Scholar
• Govender NP, Jaymati M, Rindidzani N, et al. Emergence of azole-resistant Candida parapsilosis causing bloodstream infection: results from laboratory-based sentinel surveillance, South Africa. J Antimicrob Chemother. 2016;7(71):1994–2004.
   Google Scholar
• Institute CaLS. Performance standards for antifungal susceptibility testing of yeasts – first edition M60. 2017: CLSI, Wayne, PA, USA.
   Google Scholar
• Spivak ES, Hanson KE. Candida auris: an emerging fungal pathogen. J Clin Microbiol. 2018;56(2):1–10.
   Web of Science ®Google Scholar
• Escandón P, et al. Molecular epidemiology of Candida auris in Colombia reveals a highly related, countrywide colonization with regional patterns in amphotericin B resistance. Clin Infect Dis. 2018;68(1):15–21.
   Web of Science ®Google Scholar
• Sahl JW, et al. NASP: an accurate, rapid method for the identification of SNPs in WGS datasets that supports flexible input and output formats. Microbial Genomics. 2016;2(8):e000074–e000074.
   PubMed Web of Science ®Google Scholar
• Govender NP, et al. Candida auris in South Africa, 2012–2016. Emerging Infect. Dis.. 2018;24(11):2036–2040.
   PubMed Web of Science ®Google Scholar
• Govender N, et al. FIDSSA guideline: recommendations for detection, management and prevention of healthcare-associated Candida auris colonisation and disease in South Africa S. Afr J Infect Dis. 2019;34(1):1–17.
   Google Scholar
• Chow NA, et al. Multiple introductions and subsequent transmission of multidrug-resistant Candida auris in the USA: a molecular epidemiological survey. Lancet Infect Dis. 2018;18(12):1377–1384.
   PubMed Web of Science ®Google Scholar
• Chowdhary A, et al. A multicentre study of antifungal susceptibility patterns among 350 Candida auris isolates (2009–17) in India: role of the ERG11 and FKS1 genes in azole and echinocandin resistance. J Antimicrob Chemother. 2018;73(4):891–899.
   PubMed Web of Science ®Google Scholar
• Berkow EL, Lockhart SR. Activity of CD101, a long-acting echinocandin, against clinical isolates of Candida auris. Diagn Microbiol Infect Dis. 2018;90(3):196–197.
   PubMed Web of Science ®Google Scholar
• Welsh RM, et al. Insights into the unique nature of the East Asian clade of the emerging pathogenic yeast Candida auris. J Clin Microbiol. 2019;57(4):e00007–19.
   Web of Science ®Google Scholar