In silico environmental sampling of emerging fungal pathogens via big data analysis

IF 16.4 1区化学 Q1 CHEMISTRY, MULTIDISCIPLINARY

Accounts of Chemical Research Pub Date : 2023-04-01 DOI:10.1016/j.funeco.2022.101212

Laszlo Irinyi , Michael Roper , Richard Malik , Wieland Meyer

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引用次数: 4

Abstract

Yeast species in the Candida haemulonii complex (C. haemulonii, C. haemulonii var. vulnera, C. duobushaemulonii, C. pseudohaemulonii, and C. vulturna) and closely related species (C. auris, C. heveicola, and C. ruelliae) are of significant public health concern worldwide. Little is known about their natural habitat. To understand the worldwide emergence of new fungal pathogens, it is important to identify key environmental habitats. Showing the effectiveness of the primary fungal DNA barcode and leveraging big data archived in the Sequence Read Archive (SRA) database enabled the identification of novel reservoirs over a wide range of geographical areas for those yeasts. We identified 1209 datasets corresponding to species in the C. haemulonii complex and three closely related species. Our results imply that climate change is not the main driver for the emergence of pathogenic multidrug-resistant yeast species. This approach opens the door for further big data analysis using the accessible resources of such databases.

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通过大数据分析对新出现的真菌病原体进行计算机环境采样

哈氏假丝酵母复合体中的酵母物种（哈氏假假丝酵母、假丝酵母和假丝酵母）和密切相关的物种（auris假丝酵母（C.auris）、heveicola假丝酵母以及Ruellia假丝酵母，在世界范围内引起了重大的公共卫生关注。人们对它们的自然栖息地知之甚少。为了了解新的真菌病原体在世界范围内的出现，确定关键的环境栖息地是很重要的。显示主要真菌DNA条形码的有效性，并利用序列读取档案（SRA）数据库中存档的大数据，能够在广泛的地理区域内识别出这些酵母的新储层。我们确定了1209个数据集，这些数据集对应于C.haemuloni复合体中的物种和三个密切相关的物种。我们的研究结果表明，气候变化不是致病性耐多药酵母出现的主要驱动因素。这种方法为利用此类数据库的可访问资源进行进一步的大数据分析打开了大门。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Accounts of Chemical Research 化学-化学综合

CiteScore

31.40

自引率

1.10%

发文量

312

审稿时长

2 months

期刊介绍： Accounts of Chemical Research presents short, concise and critical articles offering easy-to-read overviews of basic research and applications in all areas of chemistry and biochemistry. These short reviews focus on research from the author’s own laboratory and are designed to teach the reader about a research project. In addition, Accounts of Chemical Research publishes commentaries that give an informed opinion on a current research problem. Special Issues online are devoted to a single topic of unusual activity and significance. Accounts of Chemical Research replaces the traditional article abstract with an article "Conspectus." These entries synopsize the research affording the reader a closer look at the content and significance of an article. Through this provision of a more detailed description of the article contents, the Conspectus enhances the article's discoverability by search engines and the exposure for the research.