National Institute for Communicable Diseases (Centre for Healthcare-Associated Infections, Antimicrobial Resistance and Mycoses), a Division of the National Health Laboratory Service, Johannesburg, South Africa.
School of Pathology, Faculty of Health Sciences, University of the Witwatersrand, Johannesburg, South Africa.
Emerg Microbes Infect. 2021 Dec;10(1):1300-1308. doi: 10.1080/22221751.2021.1944323.
In South Africa, was the third most common cause of candidemia in 2016-2017. We performed single nucleotide polymorphism (SNP) genome-wide analysis of 115 isolates collected between 2009 and 2018 from national laboratory-based surveillance, an environmental survey at four hospitals and a colonization study during a neonatal unit outbreak. The first known South African strain from 2009 clustered in clade IV. Overall, 98 strains clustered within clade III (85%), 14 within clade I (12%) and three within clade IV (3%). All environmental and colonizing strains clustered in clade III. We also identified known clade-specific resistance mutations in the and genes. Identification of clade I strains between 2016 and 2018 suggests introductions from South Asia followed by local transmission. SNP analysis characterized most strains into clade III, the clade first reported from South Africa, but the presence of clades I and IV strains also suggest early introductions from other regions.
在南非，2016-2017 年，是导致念珠菌血症的第三大常见原因。我们对 2009 年至 2018 年期间从全国实验室监测、四家医院的环境调查以及新生儿病房爆发期间的定植研究中收集的 115 株进行了单核苷酸多态性（SNP）全基因组分析。首个来自 2009 年的南非 菌株聚类在 IV 群。总体而言，98 株聚类在 III 群（85%），14 株聚类在 I 群（12%），3 株聚类在 IV 群（3%）。所有环境和定植菌株均聚类在 III 群。我们还在 和 基因中鉴定了已知的具有菌株特异性的耐药突变。2016 年至 2018 年间 I 群菌株的鉴定表明，它们是从南亚传入的，随后发生了本地传播。SNP 分析将大多数 菌株分为 III 群，这是首次在南非报道的群，但 I 群和 IV 群菌株的存在也表明它们是从其他地区早期传入的。
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