Vellore Institute of Technology, School of Biosciences and Technology, Vellore, India.
Department of Genome Mapping, Molecular Genetics and Genome Mapping Laboratory, Agricultural Genetic Engineering Research Institute, Giza, Egypt.
PLoS One. 2023 Aug 17;18(8):e0289891. doi: 10.1371/journal.pone.0289891. eCollection 2023.
New evidence strongly discloses the pathogenesis of host-associated microbiomes in respiratory diseases. The microbiome dysbiosis modulates the lung's behavior and deteriorates the respiratory system's effective functioning. Several exogenous and environmental factors influence the development of asthma and chronic lung disease. The relationship between asthma and microbes is reasonably understood and yet to be investigated for more substantiation. The comorbidities such as SARS-CoV-2 further exacerbate the health condition of the asthma-affected individuals. This study examines the raw 16S rRNA sequencing data collected from the saliva and nasopharyngeal regions of pre-existing asthma (23) and non-asthma patients (82) infected by SARS-CoV-2 acquired from the public database. The experiment is designed in a two-fold pattern, analyzing the associativity between the samples collected from the saliva and nasopharyngeal regions. Later, investigates the microbial pathogenesis, its role in exacerbations of respiratory disease, and deciphering the diagnostic biomarkers of the target condition. LEfSE analysis identified that Actinobacteriota and Pseudomonadota are enriched in the SARS-CoV-2-non-asthma group and SARS-CoV-2 asthma group of the salivary microbiome, respectively. Random forest algorithm is trained with amplicon sequence variants (ASVs) attained better classification accuracy, ROC scores on nasal (84% and 87%) and saliva datasets (93% and 97.5%). Rothia mucilaginosa is less abundant, and Corynebacterium tuberculostearicum showed higher abundance in the SARS-CoV-2 asthma group. The increase in Streptococcus at the genus level in the SARS-CoV-2-asthma group is evidence of discriminating the subgroups.
新证据有力地揭示了宿主相关微生物组在呼吸道疾病中的发病机制。微生物组失调会调节肺部的行为，恶化呼吸系统的有效功能。一些外源和环境因素会影响哮喘和慢性肺部疾病的发展。哮喘和微生物之间的关系已经得到了合理的理解，但仍需要进一步研究以提供更多的证据。像 SARS-CoV-2 这样的合并症进一步恶化了受哮喘影响的个体的健康状况。本研究检查了从公共数据库中收集的来自先前存在的哮喘（23 例）和非哮喘（82 例）患者的唾液和鼻咽部位的 16S rRNA 测序原始数据。该实验采用双折叠模式设计，分析了从唾液和鼻咽部位收集的样本之间的相关性。然后，研究了微生物发病机制、其在呼吸道疾病恶化中的作用，并解析了目标疾病的诊断生物标志物。LEfSE 分析表明，唾液微生物组中，放线菌门和假单胞菌门在 SARS-CoV-2-非哮喘组和 SARS-CoV-2 哮喘组中富集。随机森林算法用扩增子序列变异（ASVs）进行训练，可获得更好的分类准确性，鼻数据集（84%和 87%）和唾液数据集（93%和 97.5%）的 ROC 得分。罗氏菌属的丰度较低，而棒状杆菌属在 SARS-CoV-2 哮喘组中的丰度较高。在 SARS-CoV-2 哮喘组中链球菌属水平的增加是区分亚组的证据。
