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Investigation of bacterial and fungal population structure on environmental surfaces of three medical institutions during the COVID-19 pandemic

文献类型： 外文期刊

作者： Dai, Rongchen 1 ; Wu, Hanting 1 ; Liu, Guiming 2 ; Shen, Linlai 3 ; Geng, Yuanyuan 4 ; Zhang, Shu 4 ; Zhou, Haijian 4 ; Jiang, Canran 4 ; Gong, Jie 4 ; Fan, Xin 5 ; Ji, Conghua 1 ;

作者机构： 1.Zhejiang Chinese Med Univ, Sch Publ Hlth, Hangzhou, Zhejiang, Peoples R China

2.Beijing Acad Agr & Forestry Sci, Beijing Agro Biotechnol Res Ctr, Beijing, Peoples R China

3.China Acad Chinese Med Sci, Beijing, Peoples R China

4.Natl Inst Communicable Dis Control & Prevent, Collaborat Innovat Ctr Diag & Treatment Infect Dis, Chinese Ctr Dis Control & Prevent, State Key Lab Infect Dis Prevent & Control, Beijing, Peoples R China

5.Capital Med Univ, Beijing Inst Resp Med, Dept Infect Dis & Clin Microbiol, Beijing, Peoples R China

6.Capital Med Univ, Beijing Chao Yang Hosp, Beijing, Peoples R China

关键词： microbiota; antibiotics; COVID-19; healthcare-associated infection; fungi

期刊名称：FRONTIERS IN MICROBIOLOGY （ 影响因子：5.2； 五年影响因子：6.2 ）

ISSN：

年卷期： 2023 年 14 卷

页码：

收录情况： SCI

摘要： ObjectivesTo evaluate the population structure of environmental bacteria and fungi in three different types of medical institutions and the potential risks due to antibiotic resistance during the coronavirus disease 2019 (COVID-19) pandemic. MethodsOne hundred twenty-six environmental surface samples were collected from three medical institutions during the COVID-19 pandemic. A total of 6,093 and 13,514 representative sequences of 16S and ITS ribosomal RNA (rRNA) were obtained by amplicon sequencing analysis. The functional prediction was performed using the Phylogenetic Investigation of Communities by Reconstruction of Unobserved States tool based on the Greengenes database and the FAPROTAX database. ResultsOn environmental surfaces in three medical institutions during the COVID-19 pandemic, Firmicutes (51.6%) and Bacteroidetes (25%) were the dominant bacteria, while Ascomycota (39.4%) and Basidiomycota (14.2%) were the dominant fungi. A number of potential bacterial and fungal pathogens were successfully identified by the metagenomic approach. Furthermore, compared with the bacterial results, the fungi showed a generally closer Bray Curtis distance between samples. The overall ratio of Gram-negative bacteria to Gram-positive bacteria was about 3:7. The proportion of stress-tolerant bacteria in medical institutions A, B and C reached 88.9, 93.0 and 93.8%, respectively. Anaerobic bacteria accounted for 39.6% in outdoor environments, 77.7% in public areas, 87.9% in inpatient areas and 79.6% in restricted areas. Finally, the beta-Lactam resistance pathway and polymyxin resistance pathway were revealed through functional prediction. ConclusionWe described the microbial population structure changes in three different types of medical institutions using the metagenomic approach during the COVID-19 pandemic. We found that the disinfection measures performed by three healthcare facilities may be effective on the "ESKAPE" pathogens, but less effective on fungal pathogens. Moreover, emphasis should be given to the prevention and control of beta-lactam and polymyxin antibiotics resistance bacteria during the COVID-19 pandemic.

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