Resilience of the respiratory microbiome in controlled adult RSV challenge study

Study information

Needs review

study design

time series / longitudinal observational

Citation

PMID PubMed identifier for scientific articles.

34711536

DOI Digital object identifier for electronic documents.

10.1183/13993003.01932-2021

URI

https://erj.ersjournals.com/content/59/1/2101932.long

Authors

Cuthbertson L, James P, Habibi MS, Thwaites RS, Paras A, Chiu C, Openshaw PJM, Cookson WOC, Moffatt MF

Journal

The European respiratory journal

Year

2022

This study of healthy adults revealed no major changes in the bacterial community of the respiratory tracts following RSV inoculation, suggesting that the adult respiratory microbial community is resilient to viral perturbations https://bit.ly/3AwnMc8

Experiment 1

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Needs review

Curated date: 2024/03/10

Curator: Aleru Divine

Revision editor(s): Aleru Divine

Subjects

Location of subjects: United Kingdom

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: Throat , Nasal cavity Gula,Throat,throat,Cavitas nasalis,Cavitas nasi,Cavity of nose,Cavity of olfactory apparatus,Cavum nasi,Nasal canal,Nasal conduit space,Nasal fossa,Nasal pit,Olfactory cavity,Olfactory chamber,Olfactory chamber cavity,Olfactory pit,Nasal cavity,nasal cavity

Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology: Respiratory Syncytial Virus Infection Human respiratory syncytial virus infection,infections, Human respiratory syncytial virus,respiratory syncytial virus infection,respiratory syncytial virus infectious disease,Respiratory Syncytial Virus Infection,respiratory Syncytial Virus Infection

Group 1 name Corresponds to the case (exposed) group for case-control studies: Healthy non-smoking adults

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: Healthy non-smoking adults between 18 and 50 years of age.

Group 1 sample size Number of subjects in the case (exposed) group: 37

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: DESeq2; Mann-Whitney (Wilcoxon); PERMANOVA; ANOVA

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

Alpha Diversity

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

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

Richness Number of species: unchanged