Air pollution during the winter period and respiratory tract microbial imbalance in a healthy young population in Northeastern China/Experiment 3

From BugSigDB


Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, Atrayees, Scholastica, Victoria

Subjects

Location of subjects
China
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 Gula,Throat,throat
Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
Air pollution air pollution,Air pollution
Group 0 name Corresponds to the control (unexposed) group for case-control studies
moderately poluuted region (B)
Group 1 name Corresponds to the case (exposed) group for case-control studies
heavily polluted region (C)
Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
paticipants lived in any of those regions for more than 2 years. region A: (lightly polluted region of PM 2.5), region B: (moderately polluted region of PM 2.5) and region C: (heavily polluted region of PM 2.5)
Group 0 sample size Number of subjects in the control (unexposed) group
40
Group 1 sample size Number of subjects in the case (exposed) group
39
Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
3 months

Lab analysis

Sequencing type
16S
16S variable region One or more hypervariable region(s) of the bacterial 16S gene
V3
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
Confounders controlled for Confounding factors that have been accounted for by stratification or model adjustment
age, body height, body weight, vital capacity, sex, Confounders controlled for: "peak expiratory flow" is not in the list (abnormal glucose tolerance, acetaldehyde, acute graft vs. host disease, acute lymphoblastic leukemia, acute myeloid leukemia, adenoma, age, AIDS, alcohol consumption measurement, alcohol drinking, ...) of allowed values.peak expiratory flow


Signature 1

Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09

Curated date: 2021/01/10

Curator: Rimsha Azhar

Revision editor(s): WikiWorks

Source: Figure 3, 4, 5, 6

Description: Abundance analysis of the dominant bacterial taxa of A (lightly polluted region of PM 2.5), B (moderately polluted region of PM 2.5) and C (heavily polluted region of PM 2.5)

Abundance in Group 1: increased abundance in heavily polluted region (C)

NCBI Quality ControlLinks
Pseudomonadota
Gammaproteobacteria
Alphaproteobacteria
Pseudomonadales

Revision editor(s): WikiWorks

Signature 2

Reviewed Marked as Reviewed by Shaimaa Elsafoury on 2021/02/09

Curated date: 2021/01/10

Curator: Rimsha Azhar

Revision editor(s): WikiWorks

Source: Figure 3, 4, 5, 6

Description: Abundance analysis of the dominant bacterial taxa of A (lightly polluted region of PM 2.5), B (moderately polluted region of PM 2.5) and C (heavily polluted region of PM 2.5)

Abundance in Group 1: decreased abundance in heavily polluted region (C)

NCBI Quality ControlLinks
Fusobacteriota
Actinomycetes
Fusobacteriia
Actinomycetales
Fusobacteriales
Neisseriales
Campylobacterales
Micrococcaceae
Fusobacteriaceae
Neisseriaceae
Leptotrichiaceae
Actinomycetaceae
Rothia
Fusobacterium
Oribacterium
Actinomyces
Campylobacter
Neisseria

Revision editor(s): WikiWorks