Enrichment of human nasopharyngeal bacteriome with bacteria from dust after short-term exposure to indoor environment: a pilot study/Experiment 1

Reviewed Marked as Reviewed by ChiomaBlessing on 2024-1-18

Curated date: 2023/10/18

Curator: Iram jamshed

Revision editor(s): Iram jamshed, Hodan Issah, ChiomaBlessing

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: Indoor dust samples

Group 1 name Corresponds to the case (exposed) group for case-control studies: Nasopharyngeal swab samples from workplaces

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: The workplaces in the study were commercially used buildings characterized by higher levels of human occupancy and usage of HVAC (heating, ventilation, air conditioning) systems, both contributing to the higher abundance of microorganisms and their spread in the building . The participants working at NEO, ENT, or RCX workplaces were included in the study

Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any): None.

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

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

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

Shannon Estimator of species richness and species evenness: more weight on species richness: unchanged

Reviewed Marked as Reviewed by ChiomaBlessing on 2024-1-18

Curated date: 2023/10/19

Curator: Iram jamshed

Revision editor(s): Iram jamshed, Hodan Issah, ChiomaBlessing

Source: Additional file 2

Description: Comparison between indoor dust and nasopharyngeal bacteriome

Abundance in Group 1: increased abundance in Nasopharyngeal swab samples from workplaces

Revision editor(s): Iram jamshed, Hodan Issah, ChiomaBlessing