Prevalence of bacteria, fungi, and virus coinfections with SARS-CoV-2 Omicron variant among patients with severe COVID-19 in Guangzhou, China, winter 2022  

作　　者：Qinghong Fan Mengling Jiang Jun Zhang Guofang Tang Ming Gao Yingfen Wen Xizi Deng Jun Dai Honghao Lai Peng Qian Yaqing Lin Ruiying He Liya Li Yueping Li Zhengtu Li Xuesong Liu Yimin Li Na Yu Yun Lan Fengyu Hu Feng Li 

机构地区：[1]Institute of Infectious Diseases,Guangzhou Eighth People's Hospital,Guangzhou Medical University,Guangzhou 510440,China [2]State Key Laboratory of Respiratory Disease,National Clinical Research Center for Respiratory Disease,Guangzhou Institute of Respiratory Health,the First Affiliated Hospital of GuangzhouMedicalUniversity,Guangzhou510120,China [3]Guangzhou Laboratory,Guangzhou 510700,China

出　　处：《Biosafety and Health》2024年第2期92-97,共6页生物安全与健康（英文）

基　　金：supported by the National Key R&D Program of China(No.2023YFC3041500 and 2023YFC3041700);the Key-Area R&D Program of Guangdong Province(No.2022B1111020002);the R&D Program of Guangzhou Laboratory(No.SRPG23-001);the Guangzhou Scienceand Technology Planning Project(No.202103000026 and 202201020316).

摘　　要：The status of coinfection during the national outbreak of severe acute respiratory syndrome coronavirus 2(SARS-CoV-2)Omicron BA.5.2 or BF.7 in China in the winter of 2022,which is suspected to contribute substantially to the overloaded severe cases,needs to be investigated.We analyzed the coinfection status of 385 severe patients infected with the Omicron variant in Guangzhou using metagenomic sequencing.We found that 317(82.3%)patients were coinfected with at least one additional pathogen(s),including bacteria(58.7%),fungi(27.1%)and viruses(73.5%).Pseudomonas aeruginosa(P.aeruginosa)(24.2%),Staphylococcus aureus(S.aureus)(14.0%),andKlebsiella pneumoniae(K.pneumonia)(13.4%)ranked as the top three coinfected bacteria.Aspergillus fumigatus(A.fumigatus)(39.5%),Pneumocystis jirovecii(P.jirovecii)(24.4%)andCanidia albicans(C.albicans)(22.1%)were the top three coinfected fungi.Epstein-Barr virus(EBV)(63.1%),Human herpesvirus 7(HHV-7)(34.8%),and Herpes simplex virus 1(HSV-1)(32.6%)were the top three coinfected viruses.Of note,the detection of multiple coinfections of potential pathogenic bacteria,fungi,and viruses,despite lacking consistent patterns,highlighted a complicated synergistic contribution to disease severity.Our study presents the most comprehensive spectrum of bacterial,fungal,and viral coinfections in Omicron-associated severe coronavirus disease 2019(COVID-19),implying that the coinfection of conditional pathogens might synergistically deteriorate the Omicron infection outcomes.

关 键 词：SARS-CoV-2 Omicron BA.5.2 Omicron BF.7 COINFECTION Severeinfection 

分 类 号：R511[医药卫生—内科学] R181.3[医药卫生—临床医学]