Lin Jyun-Hong, Wu Zong-Yen, Gong Liang, Wong Chee-Hong, Chao Wen-Cheng, Yen Chun-Ming, Wang Ching-Ping, Wei Chia-Lin, Huang Yao-Ting, Liu Po-Yu
Department of Computer Science and Information Engineering, National Chung Cheng University, Chia-Yi 62102, Taiwan.
Department of Veterinary Medicine, National Chung Hsing University, Taichung 40227, Taiwan.
J Clin Med. 2019 Mar 12;8(3):351. doi: 10.3390/jcm8030351.
Brain abscess is a severe infectious disease with high mortality and mobility. Although culture-based techniques have been widely used for the investigation of microbial composition of brain abscess, these approaches are inherent biased. Recent studies using 16S ribosomal sequencing approaches revealed high complexity of the bacterial community involved in brain abscess but fail to detect fungal and viral composition. In the study, both culture-independent nanopore metagenomic sequencing and culture-based whole-genome sequencing using both the Illumina and the Nanopore platforms were conducted to investigate the microbial composition and genomic characterization in brain abscess. Culture-independent metagenomic sequencing revealed not only a larger taxonomic diversity of bacteria but also the presence of fungi and virus communities. The culture-based whole-genome sequencing identified a novel species in and reconstructs a with a high GC-skew genome. Antibiotic-resistance genes and associated with resistance to penicillin and clindamycin were also identified in culture-based and culture-free sequencing. This study implies current understanding of brain abscess need to consider the broader diversity of microorganisms.
脑脓肿是一种具有高死亡率和致残率的严重传染病。尽管基于培养的技术已广泛用于脑脓肿微生物组成的研究，但这些方法存在固有偏差。最近使用16S核糖体测序方法的研究揭示了参与脑脓肿的细菌群落具有高度复杂性，但未能检测到真菌和病毒组成。在该研究中，采用了基于非培养的纳米孔宏基因组测序以及使用Illumina和纳米孔平台的基于培养的全基因组测序，以研究脑脓肿中的微生物组成和基因组特征。基于非培养的宏基因组测序不仅揭示了细菌在分类学上的更大多样性，还发现了真菌和病毒群落的存在。基于培养的全基因组测序在[具体内容缺失]中鉴定出一个新物种，并重建了一个具有高GC偏斜基因组的[具体内容缺失]。在基于培养和非培养的测序中还鉴定出了与对青霉素和克林霉素耐药相关的抗生素耐药基因[具体内容缺失]和[具体内容缺失]。这项研究表明，目前对脑脓肿的认识需要考虑更广泛的微生物多样性。
