Comprehensive whole genome sequencing with hybrid assembly of multi-drug resistant Candida albicans isolate causing cerebral abscess.
Comprehensive whole genome sequencing with hybrid assembly of multi-drug resistant Candida albicans isolate causing cerebral abscess.
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DOI：
10.1016/j.crmicr.2023.100180
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发表时间：
2023
影响因子：
--
通讯作者：
Monk, Jonathan M.
中科院分区：
文献类型：
--
作者：
Kumaraswamy, Monika;Coady, Alison;Szubin, Richard;Martin, Thomas C. S.;Palsson, Bernhard;Nizet, Victor;Monk, Jonathan M.
多药耐药(MDR)白色念珠菌(CA)是一种罕见的侵袭性中枢神经系统感染的原因。在这里，我们描述了一例多药耐药CA脑脓肿，利用MDR CA分离株的杂交组装进行了全面的全基因组测序，试图寻找候选的新耐药基因，并与其他CA株和MDR C.Auris(一种新的全球威胁)进行了比较分析。使用Illumina配对末端和牛津纳米孔长读技术进行杂交组装的全基因组测序。完整的基因组组装使我们能够与其他完全测序的念珠菌菌株进行比较分析，并解决我们临床分离株的倍性状态，这已知会影响暴露在抗真菌药物后的念珠菌菌株的突变谱和突变率。利用Illumina配对末端和牛津纳米孔长阅读技术，对引起脑脓肿的白色念珠菌(CA)多药耐药株进行了杂交组装的全基因组测序。这里使用的创新技术使我们能够解决碎片组装，并实施全面和详细的基因组分析参与假丝酵母菌的抗真菌耐药性。鉴定了与抗真菌耐药相关的重要基因mdr1、CDR2和SQn2，并对该临床分离株进行了系统发育分析。此外，我们的临床分离株与另外两株测序的金黄色葡萄球菌(381和386)有4个单核苷酸多态，包括翻译延伸因子EF1α和EF3，ATPase活性相关蛋白和赖氨酸tRNA连接酶。
Multi-drug resistant (MDR) Candida albicans (CA) is a rare cause of invasive central nervous system infection. Here we describe a case of MDR CA cerebral abscess, performed comprehensive whole genome sequencing (WGS) with hybrid assembly of the MDR CA isolate, attempted to identify candidate novel resistance genes, and conducted a comparative analysis to other strains of CA and MDR C. auris (an emerging global threat). Whole genome sequencing with hybrid assembly was performed using Illumina paired end and Oxford Nanopore long read technologies. Complete genome assembly allowed us to perform comparative analyses to other fully sequenced strains of Candida, and resolve the ploidy state of our clinical isolate which is known to impact the mutational spectrum and mutation rate of Candida strains following exposure to antifungal drugs. Comprehensive whole genome sequencing (WGS) with hybrid assembly of a multi-drug resistant (MDR) Candida albicans (CA) isolate causing cerebral abscess was performed using Illumina paired end and Oxford Nanopore long read technologies. The innovative technologies utilized here enabled us to resolve fragmented assemblies, and implement comprehensive and detailed genomic analyses involved in antifungal resistance of Candida spp. Functionally important genes (MDR1, CDR2 and SQN2) involved in antifungal resistance were identified and a phylogenetic analysis of the clinical isolate was performed. Additionally, our clinical isolate was found to share 4 single nucleotide polymorphisms with two other sequenced strains of MDR C. auris (381 and 386) including translation elongation factor EF1α and EF3, ATPase activity associated proteins, and the lysine tRNA ligase.
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影响因子：
64.8
作者：
Selmecki, Anna M.;Maruvka, Yosef E.;Richmond, Phillip A.;Guillet, Marie;Shoresh, Noam;Sorenson, Amber L.;De, Subhajyoti;Kishony, Roy;Michor, Franziska;Dowell, Robin;Pellman, David
通讯作者：
Pellman, David
影响因子：
--
作者：
Odds, Frank C.;Bougnoux, Marie-Elisabeth;d'Enfert, Christophe
通讯作者：
d'Enfert, Christophe
影响因子：
5.2
作者：
Whaley SG;Berkow EL;Rybak JM;Nishimoto AT;Barker KS;Rogers PD
通讯作者：
Rogers PD
影响因子：
10.7
作者：
Katoh K;Standley DM
通讯作者：
Standley DM
影响因子：
3.1
作者：
Sanguinetti, M;Posteraro, B;Fadda, G
通讯作者：
Fadda, G