Air pollution during the winter period and respiratory tract microbial imbalance in a healthy young population in Northeastern China/Experiment 1

From BugSigDB


Reviewed Marked as Reviewed by Shaimaa Elsafoury on 9 February 2021

Curated date: 2021/01/10

Curator: WikiWorks743

Revision editor(s): WikiWorks753, WikiWorks743

Subjects

Location of subjects Country from which study subjects were recruited
China
Host species Species from which microbiome was sampled (if applicable)
Homo sapiens
Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
Throat Gula,Throat
Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
air pollution air pollution
Group 0 name Corresponds to the control (unexposed) group for case-control studies
lightly poluuted region (A)
Group 1 name Corresponds to the case (exposed) group for case-control studies
moderately polluted region (B)
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
35
Group 1 sample size Number of subjects in the case (exposed) group
40
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 Experimental technique used for quantifying microbial abundance
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

Statistical test Statistical test or computational tool used for differential abundance testing
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 sex" 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 for the "Confounders controlled for" property.age sex, "height" 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 for the "Confounders controlled for" property.height, "weight" 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 for the "Confounders controlled for" property.weight, vital capacity, "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 for the "Confounders controlled for" property.peak expiratory flow


Signature 1

Reviewed Marked as Reviewed by Shaimaa Elsafoury on 9 February 2021

Curated date: 2019-09-19

Curator: Rimsha Azhar

Revision editor(s): WikiWorks743

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 moderately polluted region (B)

NCBI Links
Firmicutes
Actinobacteria
Clostridia
Actinomycetia
Eubacteriales
Actinomycetales
Lachnospiraceae
Micrococcaceae
Actinomycetaceae
Oscillospiraceae
Rothia
Oribacterium
Neisseria
Actinomyces

Revision editor(s): WikiWorks743

Signature 2

Reviewed Marked as Reviewed by Shaimaa Elsafoury on 9 February 2021

Curated date: 2019-09-19

Curator: Rimsha Azhar

Revision editor(s): WikiWorks743

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 moderately polluted region (B)

NCBI Links
Bacteroidota
Fusobacteria
Bacteroidia
Fusobacteriia
c__tm7-3c__tm7-3
Bacteroidales
Fusobacteriales
Flavobacteriales
Pseudomonadales
Prevotellaceae
Veillonellaceae
Porphyromonadaceae
Fusobacteriaceae
f__paraprevotellaceaef__paraprevotellaceae
k__Bacteria, p__Firmicutes, c__Clostridia, o__ Clostridiales, f__ Mogibacteriaceaef__ Mogibacteriaceae
Moraxellaceae
Prevotella
Veillonella
Porphyromonas
Fusobacterium
Peptostreptococcus
Moraxella

Revision editor(s): WikiWorks743