期刊
SCIENTIFIC REPORTS
卷 10, 期 1, 页码 -出版社
NATURE PORTFOLIO
DOI: 10.1038/s41598-020-77289-3
关键词
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资金
- National Institute of Allergy and Infectious Diseases [U19AI095227, K24AI77930, 1R21AI149262, 1R21AI154016, U19AI110819]
- Vanderbilt Institute for Clinical and Translational Research (National Center for Advancing Translational Sciences) [UL1TR000445]
- Department of Pediatrics K12 Mentored Research Program at Vanderbilt University (Eunice Kennedy Shriver National Institute of Child Health and Human Development) [K12HD087023]
- Parker B. Francis Fellowship Program
- Vanderbilt University Medical Center
- Hormone Assay and Analytical Services Core (National Institute of Diabetes and Digestive and Kidney Diseases) [U2CDK059637, P30DK020593]
- Vanderbilt Technologies for Advanced Genomics Core (National Institutes of Health) [UL1RR024975, P30CA68485, P30EY08126, G20 RR030956]
Despite being commonly used to collect upper airway epithelial lining fluid, nasal washes are poorly reproducible, not suitable for serial sampling, and limited by a dilution effect. In contrast, nasal filters lack these limitations and are an attractive alternative. To examine whether nasal filters are superior to nasal washes as a sampling method for the characterization of the upper airway microbiome and immune response, we collected paired nasal filters and washes from a group of 40 healthy children and adults. To characterize the upper airway microbiome, we used 16S ribosomal RNA and shotgun metagenomic sequencing. To characterize the immune response, we measured total protein using a BCA assay and 53 immune mediators using multiplex magnetic bead-based assays. We conducted statistical analyses to compare common microbial ecology indices and immune-mediator median fluorescence intensities (MFIs) between sample types. In general, nasal filters were more likely to pass quality control in both children and adults. There were no significant differences in microbiome community richness, alpha -diversity, or structure between pediatric samples types; however, these were all highly dissimilar between adult sample types. In addition, there were significant differences in the abundance of amplicon sequence variants between sample types in children and adults. In adults, total proteins were significantly higher in nasal filters than nasal washes; consequently, the immune-mediator MFIs were not well detected in nasal washes. Based on better quality control sequencing metrics and higher immunoassay sensitivity, our results suggest that nasal filters are a superior sampling method to characterize the upper airway microbiome and immune response in both children and adults.
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