Lee S, An C, Xu S, Lee S, Yamamoto N
Department of Environmental Health Sciences, Graduate School of Public Health, Seoul National University, Seoul, South Korea.
Lett Appl Microbiol. 2016 Sep;63(3):165-71. doi: 10.1111/lam.12608. Epub 2016 Jul 25.
This study used the Illumina MiSeq to analyse compositions and diversities of Aspergillus species in outdoor air. The seasonal air samplings were performed at two locations in Seoul, South Korea. The results showed the relative abundances of all Aspergillus species combined ranging from 0·20 to 18% and from 0·19 to 21% based on the number of the internal transcribed spacer 1 (ITS1) and β-tubulin (BenA) gene sequences respectively. Aspergillus fumigatus was the most dominant species with the mean relative abundances of 1·2 and 5·5% based on the number of the ITS1 and BenA sequences respectively. A total of 29 Aspergillus species were detected and identified down to the species rank, among which nine species were known opportunistic pathogens. Remarkably, eight of the nine pathogenic species were detected by either one of the two markers, suggesting the need of using multiple markers and/or primer pairs when the assessments are made based on the high-throughput sequencing. Due to diversity of species within the genus Aspergillus, the high-throughput sequencing was useful to characterize their compositions and diversities in outdoor air, which are thought to be difficult to be accurately characterized by conventional culture and/or Sanger sequencing-based techniques.
Aspergillus is a diverse genus of fungi with more than 300 species reported in literature. Aspergillus is important since some species are known allergens and opportunistic human pathogens. Traditionally, growth-dependent methods have been used to detect Aspergillus species in air. However, these methods are limited in the number of isolates that can be analysed for their identities, resulting in inaccurate characterizations of Aspergillus diversities. This study used the high-throughput sequencing to explore Aspergillus diversities in outdoor, which are thought to be difficult to be accurately characterized by traditional growth-dependent techniques.
本研究使用Illumina MiSeq分析室外空气中曲霉属物种的组成和多样性。在韩国首尔的两个地点进行了季节性空气采样。结果显示，基于内部转录间隔区1（ITS1）和β-微管蛋白（BenA）基因序列数量，所有曲霉属物种的相对丰度分别为0.20%至18%和0.19%至21%。烟曲霉是最主要的物种，基于ITS1和BenA序列数量，其平均相对丰度分别为1.2%和5.5%。共检测并鉴定出29种曲霉属物种，其中9种是已知的机会致病菌。值得注意的是，9种致病物种中有8种通过两种标记中的一种被检测到，这表明在基于高通量测序进行评估时需要使用多种标记和/或引物对。由于曲霉属内物种的多样性，高通量测序有助于表征其在室外空气中的组成和多样性，而传统培养和/或基于桑格测序的技术被认为难以准确表征这些特征。
曲霉是一个多样化的真菌属，文献报道有300多种。曲霉很重要，因为一些物种是已知的过敏原和人类机会致病菌。传统上，依赖生长的方法被用于检测空气中的曲霉属物种。然而，这些方法在可分析其身份的分离株数量上有限，导致曲霉多样性的表征不准确。本研究使用高通量测序来探索室外的曲霉多样性，而传统依赖生长的技术被认为难以准确表征这些多样性。
