Lower airway microbiota and mycobiota in children with severe asthma

From BugSigDB
Reviewed Marked as Reviewed by Claregrieve1 on 2022/10/23
study design
Citation
PMID PubMed identifier for scientific articles.
DOI Digital object identifier for electronic documents.
URI
Authors
Goldman DL, Chen Z, Shankar V, Tyberg M, Vicencio A, Burk R
Journal
The Journal of allergy and clinical immunology
Year
2018

Experiment 1


Reviewed Marked as Reviewed by Claregrieve1 on 2022/10/23

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): Claregrieve1, WikiWorks, Victoria

Subjects

Location of subjects
United States of America
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
Right lung middle lobe bronchiole Bronchiole of middle right lobe,Bronchiole of right middle lobe,Bronchiole of right middle lobe of lung,Right lung middle lobe bronchiole,right lung middle lobe bronchiole
Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Asthma Airway hyperreactivity,asthma,Asthma (disorder),Asthma NOS,Asthma NOS (disorder),ASTHMA NOS W (AC) EXAC,Asthma unspecified,Asthma unspecified (disorder),Asthma, Bronchial,Asthma, unspecified,Asthma, unspecified type, with acute exacerbation,Asthma, unspecified type, without mention of status asthmaticus,Asthmas,Asthmatic,BHR - Bronchial hyperreactivity,Bronchial asthma,Bronchial Hyperreactivities,Bronchial hyperreactivity,bronchial hyperreactivity,Bronchial hyperresponsiveness,Bronchial hypersensitivity,chronic obstructive asthma,chronic obstructive asthma with acute exacerbation,chronic obstructive asthma with status asthmaticus,DUST PNEUMONOPATHY NEC,Exercise induced asthma,exercise induced asthma,Exercise-induced asthma,exercise-induced asthma,Exercise-induced asthma (disorder),Hyperreactive airway disease,Hyperreactive airways disease,Hyperreactivities, Bronchial,Hyperreactivity, Bronchial,Other forms of asthma,Pneumonopathy due to inhalation of other dust,Pneumopathy due to inhalation of other dust,Pneumopathy due to inhalation of other dust (disorder),Pneumopathy due to inhalation of other dust NOS,Pneumopathy due to inhalation of other dust NOS (disorder),Asthma
Group 0 name Corresponds to the control (unexposed) group for case-control studies
non-asthma
Group 1 name Corresponds to the case (exposed) group for case-control studies
severe asthma
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
severe asthma
Group 0 sample size Number of subjects in the control (unexposed) group
11
Group 1 sample size Number of subjects in the case (exposed) group
15

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)?
No

Alpha Diversity

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

Signature 1

Reviewed Marked as Reviewed by Claregrieve1 on 2022/10/23

Curated date: 2021/01/10

Curator: Rimsha Azhar

Revision editor(s): Fatima, Claregrieve1, WikiWorks

Source: Figure 1a, 1b

Description: Differentially abundant genera between severe asthma and non-asthma patients

Abundance in Group 1: increased abundance in severe asthma

NCBI Quality ControlLinks
Alistipes
Anaerostipes
Bacteroides
Capnocytophaga
Eisenbergiella
Eubacterium
Faecalibacterium
Flavonifractor
Leucosporidium
Odoribacter
Oscillibacter
Parabacteroides
Pneumocystis
Rhodotorula
Romboutsia
Roseburia
Ruminococcus

Revision editor(s): Fatima, Claregrieve1, WikiWorks

Signature 2

Reviewed Marked as Reviewed by Claregrieve1 on 2022/10/23

Curated date: 2021/01/10

Curator: Rimsha Azhar

Revision editor(s): Claregrieve1, WikiWorks

Source: Figure 1a, 1b

Description: Differentially abundant genera between severe asthma and non-asthma patients

Abundance in Group 1: decreased abundance in severe asthma

NCBI Quality ControlLinks
Cryptococcus
Davidiella
Proteus
Sterigmatomyces

Revision editor(s): Claregrieve1, WikiWorks