Enrichment of human nasopharyngeal bacteriome with bacteria from dust after short-term exposure to indoor environment: a pilot study/Experiment 2

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Reviewed Marked as Reviewed by ChiomaBlessing on 2024-1-28

Curated date: 2024/01/18

Curator: ChiomaBlessing

Revision editor(s): ChiomaBlessing

Subjects

Location of subjects

Czechia

Host species Species from which microbiome was sampled. Contact us to have more species added.

Homo sapiens

Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology

Nasopharyngeal gland Nasopharyngeal gland,nasopharyngeal gland

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology

Microbiome measurement Microbiome measurement,microbiome measurement

Group 0 name Corresponds to the control (unexposed) group for case-control studies

Nasopharyngeal swab samples collected in the Morning from workplaces (NEO, ENT, RCX)

Group 1 name Corresponds to the case (exposed) group for case-control studies

Nasopharyngeal swab samples collected in the afternoon from workplaces (NEO, ENT, RCX)

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group

Nasopharyngeal swabs collected in the afternoon (after an 8 h exposure to the workplace environment). The participants were working at NEO, ENT, or RCX workplaces.

Group 0 sample size Number of subjects in the control (unexposed) group

22

Group 1 sample size Number of subjects in the case (exposed) group

21

Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)

None.

Lab analysis

Sequencing type

16S

16S variable region One or more hypervariable region(s) of the bacterial 16S gene

V4

Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance

Illumina

Statistical Analysis

Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).

relative abundances

Statistical test

Mann-Whitney (Wilcoxon)

Significance threshold p-value or FDR threshold used for differential abundance testing (if any)

0.05

MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?

Yes

LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool

2.0

Alpha Diversity

Richness Number of species

unchanged