INTRODUCTION Oral mycobiome profiling is important to understand host-pathogen interactions that occur in various diseases. Invasive fungal infections are particularly relevant for patients who have received chemotherapy and for those who have HIV infection. In addition, changes in fungal microbiota are associated with the worsening of chronic conditions like atopic dermatitis (AD). This work aims, through a systematic review, to analyze the methods used in previous studies to identify oral fungi and their most frequent species in patients with the following conditions: HIV infection, leukemia, and atopic dermatitis. METHODS A literature search was performed on several different databases. Inclusion criteria were: written in English or Portuguese; published between September 2009 and September 2019; analyzed oral fungi of HIV-infected, leukemia, or AD patients. RESULTS 21 studies were included and the most identified species was Candida. The predominant methods of identification were morphological (13/21) and sugar fermentation and assimilation tests (11/21). Polymerase chain reaction (PCR) was the most used molecular method (8/21) followed by sequencing techniques (3/21). CONCLUSIONS Although morphological and biochemical tests are still used, they are associated with high-throughput sequencing techniques, due to their accuracy and time saving for profiling the predominant species in oral mycobiome.

中文翻译：

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特应性皮炎、白血病和艾滋病毒患者的口腔真菌组鉴定——系统评价。


简介 口腔真菌组分析对于了解各种疾病中发生的宿主-病原体相互作用非常重要。侵袭性真菌感染与接受化疗的患者和 HIV 感染者尤其相关。此外，真菌微生物群的变化与特应性皮炎（AD）等慢性疾病的恶化有关。这项工作的目的是，通过系统回顾，分析先前研究中用于识别口腔真菌及其在患有以下疾病的患者中最常见的种类的方法：HIV感染、白血病和特应性皮炎。方法 在几个不同的数据库中进行文献检索。纳入标准为： 用英语或葡萄牙语书写； 2009年9月至2019年9月期间出版；分析了 HIV 感染者、白血病或 AD 患者的口腔真菌。结果 纳入了 21 项研究，其中识别最多的物种是念珠菌。主要的鉴定方法是形态学（13/21）和糖发酵和同化试验（11/21）。聚合酶链式反应 (PCR) 是最常用的分子方法 (8/21)，其次是测序技术 (3/21)。结论 尽管形态学和生化测试仍在使用，但它们与高通量测序技术相关，因为它们在分析口腔真菌组中的主要物种方面准确且节省时间。