Sex-specific impact of asthma during pregnancy on infant gut microbiota

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Reviewed Marked as Reviewed by Folakunmi on 2024-2-29

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, ChiomaBlessing, Folakunmi

Subjects

Location of subjects: Canada

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: Feces Cow dung,Cow pat,Droppings,Dung,Excrement,Excreta,Faeces,Fecal material,Fecal matter,Fewmet,Frass,Guano,Matières fécales@fr,Merde@fr,Ordure,Partie de la merde@fr,Piece of shit,Porción de mierda@es,Portion of dung,Portion of excrement,Portion of faeces,Portion of fecal material,Portion of fecal matter,Portion of feces,Portion of guano,Portion of scat,Portionem cacas,Scat,Spoor,Spraint,Stool,Teil der fäkalien@de,Feces,feces

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: no asthma

Group 1 name Corresponds to the case (exposed) group for case-control studies: maternal asthma/male caucasian infants

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: male caucasian infants born to mothers who had prenatal asthma

Group 0 sample size Number of subjects in the control (unexposed) group: 504

Group 1 sample size Number of subjects in the case (exposed) group: 41

Lab analysis

Sequencing type: 16S

16S variable region One or more hypervariable region(s) of the bacterial 16S gene: Not specified

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: LEfSe

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

Alpha Diversity

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

Chao1 Abundance-based estimator of species richness: unchanged

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

Signature 1

Reviewed Marked as Reviewed by Folakunmi on 2024-2-27

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): WikiWorks, KathyWaldron, Merit, ChiomaBlessing, Folakunmi

Source: Figure 1a

Description: Linear discriminant analysis (LDA) plots for maternal prenatal atopic asthma for those who gave birth to male caucasian infants compared to no asthma group.

Abundance in Group 1: increased abundance in maternal asthma/male caucasian infants

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Actinomyces
Actinomycetaceae
Lactococcus
Megamonas
unclassified Actinomyces
unclassified Lactococcus
Gemellaceae
unclassified Megamonas

Revision editor(s): WikiWorks, KathyWaldron, Merit, ChiomaBlessing, Folakunmi

Signature 2

Reviewed Marked as Reviewed by Folakunmi on 2024-2-27

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): WikiWorks, KathyWaldron, ChiomaBlessing, Folakunmi

Source: Figure 1a

Description: Linear discriminant analysis (LDA) plots for maternal prenatal atopic asthma for those who gave birth to male caucasian infants compared to no asthma group.

Abundance in Group 1: decreased abundance in maternal asthma/male caucasian infants

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Trabulsiella
unclassified Lactobacillus

Revision editor(s): WikiWorks, KathyWaldron, ChiomaBlessing, Folakunmi

Experiment 2

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Reviewed Marked as Reviewed by Folakunmi on 2024-2-27

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, ChiomaBlessing, Folakunmi

Differences from previous experiment shown

Subjects

Group 1 name Corresponds to the case (exposed) group for case-control studies: maternal asthma

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: female caucasian infants born to mothers who had prenatal asthma

Group 0 sample size Number of subjects in the control (unexposed) group: 430

Group 1 sample size Number of subjects in the case (exposed) group: 46

Lab analysis

Statistical Analysis

Alpha Diversity

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

Chao1 Abundance-based estimator of species richness: unchanged

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

Signature 1

Reviewed Marked as Reviewed by Folakunmi on 2024-2-27

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): WikiWorks, KathyWaldron, ChiomaBlessing, Folakunmi

Source: Figure 1b

Description: Linear discriminant analysis (LDA) plots for maternal prenatal atopic asthma for those who gave birth to female caucasian infants compared to no asthma group.

Abundance in Group 1: increased abundance in maternal asthma

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Bacteroidaceae
Bacteroidales
Bacteroides
Bacteroides fragilis
Bacteroidia
Bacteroidota
Pseudomonas
unclassified Pseudomonas

Revision editor(s): WikiWorks, KathyWaldron, ChiomaBlessing, Folakunmi

Signature 2

Reviewed Marked as Reviewed by Folakunmi on 2024-2-27

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): WikiWorks, Merit, ChiomaBlessing, Folakunmi

Source: Figure 1b

Description: Linear discriminant analysis (LDA) plots for maternal prenatal atopic asthma for those who gave birth to female caucasian infants compared to no asthma group.

Abundance in Group 1: decreased abundance in maternal asthma

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Megasphaera
unclassified Megasphaera
Clostridium sp.

Revision editor(s): WikiWorks, Merit, ChiomaBlessing, Folakunmi

Experiment 4

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Reviewed Marked as Reviewed by Folakunmi on 2024-2-27

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, Folakunmi

Differences from previous experiment shown

Subjects

Group 1 name Corresponds to the case (exposed) group for case-control studies: maternal asthma/caucasian infants

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: mothers of caucasian infants who had prenatal asthma

Group 0 sample size Number of subjects in the control (unexposed) group: 721

Group 1 sample size Number of subjects in the case (exposed) group: 74

Lab analysis

Statistical Analysis

Statistical test: Mann-Whitney (Wilcoxon)

LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool: Not specified

Alpha Diversity

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

Chao1 Abundance-based estimator of species richness: unchanged

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

Signature 1

Reviewed Marked as Reviewed by Folakunmi on 2024-2-27

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): WikiWorks

Source: Table 2

Description: Median relative abundance of dominant bacterial taxa at the phylum, family and genus levels in infant gut microbiota according to material prenatal asthma in caucasian infants

Abundance in Group 1: decreased abundance in maternal asthma/caucasian infants

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Lactobacillaceae
Lactobacillus

Revision editor(s): WikiWorks

Experiment 5

Your review change was submittedDuplicate this Experiment Add a new Signature

Reviewed Marked as Reviewed by Folakunmi on 2024-2-27

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, Folakunmi

Differences from previous experiment shown

Subjects

Group 1 name Corresponds to the case (exposed) group for case-control studies: maternal asthma/female infants

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: prenatal asthma mothers of female infants who were vaginally delivered, breastfed, not exposed to maternal antibiotics

Group 0 sample size Number of subjects in the control (unexposed) group: 186

Group 1 sample size Number of subjects in the case (exposed) group: 21

Lab analysis

Statistical Analysis

Signature 1

Reviewed Marked as Reviewed by Folakunmi on 2024-2-27

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): WikiWorks

Source: Supplemental Table S2

Description: Median relative abundance of dominant bacterial taxa in infant gut microbiota according to material prenatal asthma in female infants, vaginally delivered, breastfed, not exposed to materal antibiotics during birth

Abundance in Group 1: increased abundance in maternal asthma/female infants

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Bacteroidaceae
Bacteroides
Bacteroidota
Dorea

Revision editor(s): WikiWorks

Signature 2

Reviewed Marked as Reviewed by Folakunmi on 2024-2-27

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): WikiWorks

Source: Supplemental Table S2

Description: Median relative abundance of dominant bacterial taxa in infant gut microbiota according to material prenatal asthma in female infants, vaginally delivered, breastfed, not exposed to materal antibiotics during birth

Abundance in Group 1: decreased abundance in maternal asthma/female infants

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Bacillota
Pseudomonadota
Enterobacteriaceae

Revision editor(s): WikiWorks

Experiment 6

Your review change was submittedDuplicate this Experiment Add a new Signature

Reviewed Marked as Reviewed by Folakunmi on 2024-2-27

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, Folakunmi

Differences from previous experiment shown

Subjects

Group 1 name Corresponds to the case (exposed) group for case-control studies: maternal asthma/caucasian infants/allergies

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: prenatal asthma mothers of caucasian infants, who had allergies during pregnancy

Group 0 sample size Number of subjects in the control (unexposed) group: 429

Group 1 sample size Number of subjects in the case (exposed) group: 64

Lab analysis

Statistical Analysis

Signature 1

Reviewed Marked as Reviewed by Folakunmi on 2024-2-27

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): WikiWorks

Source: Supplemental Table S3

Description: Median relative abundance of dominant bacterial taxa at the phylum, family and genus levels in infant gut microbiota according to material prenatal asthma in caucasian mothers with allergies during pregnancy

Abundance in Group 1: decreased abundance in maternal asthma/caucasian infants/allergies

NCBI	Quality Control	Links
Lactobacillaceae
Lactobacillus
Megasphaera
Enterobacteriaceae

Revision editor(s): WikiWorks

Experiment 7

Your review change was submittedDuplicate this Experiment Add a new Signature

Reviewed Marked as Reviewed by Folakunmi on 2024-2-27

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, Folakunmi

Differences from previous experiment shown

Subjects

Group 1 name Corresponds to the case (exposed) group for case-control studies: maternal asthma/caucasian infants/no allergies

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: prenatal asthma mothers of caucasian infants, who had no allergies during pregnancy

Group 0 sample size Number of subjects in the control (unexposed) group: 278

Group 1 sample size Number of subjects in the case (exposed) group: 10

Lab analysis

Statistical Analysis

Signature 1

Reviewed Marked as Reviewed by Folakunmi on 2024-2-27

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): WikiWorks

Source: Supplemental Table S3

Description: Median relative abundance of dominant bacterial taxa at the phylum, family and genus levels in infant gut microbiota according to material prenatal asthma in caucasian mothers with no allergies during pregnancy

Abundance in Group 1: increased abundance in maternal asthma/caucasian infants/no allergies

NCBI	Quality Control	Links
Verrucomicrobiota
Verrucomicrobiaceae
Akkermansia

Revision editor(s): WikiWorks

Signature 2

Reviewed Marked as Reviewed by Folakunmi on 2024-2-27

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): WikiWorks

Source: Supplemental Table S3

Description: Median relative abundance of dominant bacterial taxa at the phylum, family and genus levels in infant gut microbiota according to material prenatal asthma in caucasian mothers with no allergies during pregnancy

Abundance in Group 1: decreased abundance in maternal asthma/caucasian infants/no allergies

NCBI	Quality Control	Links
Actinomycetaceae
Actinomyces

Revision editor(s): WikiWorks

Experiment 8

Your review change was submittedDuplicate this Experiment Add a new Signature

Reviewed Marked as Reviewed by Folakunmi on 2024-2-27

Curated date: 2024/02/27

Curator: Folakunmi

Revision editor(s): Folakunmi

Differences from previous experiment shown

Subjects

Group 1 name Corresponds to the case (exposed) group for case-control studies: overweight prenatal asthma caucasian mothers

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: prenatal asthma mothers of caucasian infants, who were overweight/obese before pregnancy

Group 0 sample size Number of subjects in the control (unexposed) group: 291

Group 1 sample size Number of subjects in the case (exposed) group: 33

Lab analysis

Statistical Analysis

Signature 1