Persistence of an epidemic cluster of Rhodotorula mucilaginosa in multiple geographic regions in China and the emergence of a 5-flucytosine resistant clone

Emerging Microbes and Infections

Ying-Xing Li¹  Zhi-Dong Hu²  Wei-Ping Wang³  Chong-Jie Pang⁴  Xin Fan⁵  Lan-Ying Cui⁶  Ge Zhang⁷  Ying-Chun Xu⁷  Meng Xiao⁷  Jing-Jing Huang⁷  Xin-Fei Chen⁷  Yu-Ling Xiao⁸  Clement K.M. Tsui⁹  Yi Shi^1,10  Jie Gong^1,11 

[1] Beijing Key Laboratory for Mechanisms Research and Precision Diagnosis of Invasive Fungal Diseases, Beijing, People’s Republic of China;Department of Clinical Laboratories, Tianjin Medical University General Hospital, Tianjin, People’s Republic of China;Department of Clinical Laboratory, Jinling Hospital, Medical School of Nanjing University, Nanjing, People’s Republic of China;Department of Infection Diseases, Tianjin Medical University General Hospital, Tianjin, People’s Republic of China;Department of Infectious Diseases and Clinical Microbiology, Beijing Institute of Respiratory Medicine and Beijing Chao-Yang Hospital, Capital Medical University, Beijing, People’s Republic of China;Department of Laboratory Diagnosis, the first Affiliated Hospital of Harbin Medical University, Harbin, People’s Republic of China;Department of Laboratory Medicine, State Key Laboratory of Complex Severe and Rare Diseases, Peking Union Medical College Hospital, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, People’s Republic of China;Department of Laboratory Medicine, West China Hospital, Sichuan University, Chengdu, People’s Republic of China;Department of Pathology, Sidra Medicine, Education City, Al Rayyan Municipality, Qatar;Department of Respiratory and Critical Care Medicine, Jinling Hospital, Medical School of Nanjing University, Nanjing, People’s Republic of China;State Key Laboratory of Infectious Disease Prevention and Control, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, People’s Republic of China;

关键词: Rhodotorula mucilaginosa;    molecular typing;    WGS;    genomic epidemiology;    outbreak, zoonotic;   

DOI  :  10.1080/22221751.2022.2059402

来源: DOAJ

【 摘 要 】

Rhodotorula mucilaginosa, an environmental yeast widely used in industry and agriculture, is also an opportunistic pathogen resistant to multi-antifungals. During the national surveillance in China, R. mucilaginosa has been documented from various hospitals and regions. At present, the molecular epidemiology of invasive infections caused by R. mucilaginosa and their resistance profiles to antifungals were unknown. Here we collected 49 strains from four hospitals located in different geographic regions from 2009 to 2019 in China, determined their genotypes using different molecular markers and quantified susceptibilities to various antifungals. Sequencing of ITS and D1/D2 regions in rDNA indicated that 73.5% (36/49) of clinical strains belong to same sequence type (rDNA type 2). Microsatellite (MT) genotyping with 15 (recently developed) tandem repeat loci identified 5 epidemic MT types, which accounted for 44.9% (22/49) of clinical strains, as well as 27 sporadic MT types. Microsatellite data indicated that the presence of an epidemic cluster including 35 strains (71.4%) repeatedly isolated in four hospitals for eight years. Single nucleotide variants (SNVs) from the whole genome sequence data also supported the clustering of these epidemic strains due to low pairwise distance. In addition, phylogenetic analysis of SNVs from these clinical strains, together with environmental and animal strains showed that the closely related epidemic cluster strains may be opportunistic, zoonotic pathogens. Also, molecular data indicated a possible clonal transmission of pan echinocandins-azoles-5-flucytosine resistant R. mucilaginosa strains in hospital H01. Our study demonstrated that R. mucilaginosa is a multi-drug resistant pathogen with the ability to cause nosocomial infection.

【 授权许可】

Unknown