Two sampling methods yield distinct microbial signatures in the nasopharynges of asthmatic children.
Two sampling methods yield distinct microbial signatures in the nasopharynges of asthmatic children.
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DOI：
10.1186/s40168-016-0170-5
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发表时间：
2016-06-16
期刊：
影响因子：
15.5
通讯作者：
Freishtat RJ
中科院分区：
文献类型：
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作者：
Pérez-Losada M;Crandall KA;Freishtat RJ
鼻咽是与呼吸道疾病（如哮喘）相关的病原体的储存库。下一代测序（NGS）已被用于表征健康和疾病期间的鼻咽微生物组。到目前为止，大多数研究都将鼻咽作为一个整体进行了调查;然而，对鼻腔微环境的空间变化（微生物学）以及采样技术如何捕获微生物多样性知之甚少。我们使用靶向16 S rRNA MiSeq测序和两种不同的采样策略[鼻洗液（NW）和鼻刷（NB）]来表征30名哮喘儿童的鼻咽微生物群。鼻腔刷洗比鼻腔冲洗更粗糙，并且针对下鼻甲的内部。预计该区域与其他鼻腔微环境不同。鼻腔冲洗没有空间特异性。我们的30 × 2鼻微生物组生成了1，474，497个序列，从中我们在NW和NB组中分别确定了每个样本平均157个和186个OTU。来自NB的微生物群落显示出比来自NW的微生物群落显著更高的α多样性。类似地，两种鼻微生物菌群彼此不同（PCoA），并且在至少9个属中其群落组成和丰度显著不同（有效大小≥ 1%）。哮喘患儿鼻咽部微环境中含有不同多样性和结构的微生物群。鼻洗液和鼻刷以不同的方式捕捉这种多样性。未来鼻咽部的微生物研究需要注意潜在的空间变化（微生物学）。
The nasopharynx is a reservoir for pathogens associated with respiratory illnesses, such as asthma. Next-generation sequencing (NGS) has been used to characterize the nasopharyngeal microbiome during health and disease. Most studies so far have surveyed the nasopharynx as a whole; however, less is known about spatial variation (biogeography) in nasal microenvironments and how sampling techniques may capture that microbial diversity. We used targeted 16S rRNA MiSeq sequencing and two different sampling strategies [nasal washes (NW) and nasal brushes (NB)] to characterize the nasopharyngeal microbiota in 30 asthmatic children. Nasal brushing is more abrasive than nasal washing and targeted the inner portion of the inferior turbinate. This region is expected to be different from other nasal microenvironments. Nasal washing is not spatially specific. Our 30 × 2 nasal microbiomes generated 1,474,497 sequences, from which we identified an average of 157 and 186 OTUs per sample in the NW and NB groups, respectively. Microbiotas from NB showed significantly higher alpha-diversity than microbiotas from NW. Similarly, both nasal microbiotas were distinct from each other (PCoA) and significantly differed in their community composition and abundance in at least 9 genera (effective size ≥1 %). Nasopharyngeal microenvironments in asthmatic children contain microbiotas with different diversity and structure. Nasal washes and brushes capture that diversity differently. Future microbial studies of the nasopharynx need to be aware of potential spatial variation (biogeography).