A prospective microbiome-wide association study of food sensitization and food allergy in early childhood

Study information

Reviewed Marked as Reviewed by Atrayees on 2023-7-19

study design

prospective cohort

Citation

PMID PubMed identifier for scientific articles.

28632934

DOI Digital object identifier for electronic documents.

10.1111/all.13232

URI

Authors

Savage JH, Lee-Sarwar KA, Sordillo J, Bunyavanich S, Zhou Y, O'Connor G, Sandel M, Bacharier LB, Zeiger R, Sodergren E, Weinstock GM, Gold DR, Weiss ST, Litonjua AA

Journal

Allergy

Year

2018

Keywords:

Dorea, food allergy, food sensitization, microbiome

BACKGROUND: Alterations in the intestinal microbiome are prospectively associated with the development of asthma; less is known regarding the role of microbiome alterations in food allergy development. METHODS: Intestinal microbiome samples were collected at age 3-6 months in children participating in the follow-up phase of an interventional trial of high-dose vitamin D given during pregnancy. At age 3, sensitization to foods (milk, egg, peanut, soy, wheat, walnut) was assessed. Food allergy was defined as caretaker report of healthcare provider-diagnosed allergy to the above foods prior to age 3 with evidence of IgE sensitization. Analysis was performed using Phyloseq and DESeq2; P-values were adjusted for multiple comparisons. RESULTS: Complete data were available for 225 children; there were 87 cases of food sensitization and 14 cases of food allergy. Microbial diversity measures did not differ between food sensitization and food allergy cases and controls. The genera Haemophilus (log2 fold change -2.15, P=.003), Dialister (log2 fold change -2.22, P=.009), Dorea (log2 fold change -1.65, P=.02), and Clostridium (log2 fold change -1.47, P=.002) were underrepresented among subjects with food sensitization. The genera Citrobacter (log2 fold change -3.41, P=.03), Oscillospira (log2 fold change -2.80, P=.03), Lactococcus (log2 fold change -3.19, P=.05), and Dorea (log2 fold change -3.00, P=.05) were underrepresented among subjects with food allergy. CONCLUSIONS: The temporal association between bacterial colonization and food sensitization and allergy suggests that the microbiome may have a causal role in the development of food allergy. Our findings have therapeutic implications for the prevention and treatment of food allergy.

Experiment 1

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Curated date: 2021/01/10

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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: 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: Food allergy Food Hypersensitivity,Food intolerance,Food allergy,food allergy

Group 0 name Corresponds to the control (unexposed) group for case-control studies: no food sensitization

Group 1 name Corresponds to the case (exposed) group for case-control studies: child with food sensitization

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: child with serum-specific IgE to milk, egg, peanut, soy, wheat, and walnut greater than 0.35 kU/L at age 3

Group 0 sample size Number of subjects in the control (unexposed) group: 131

Group 1 sample size Number of subjects in the case (exposed) group: 85

Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any): 1 week

Lab analysis

Sequencing type: 16S

16S variable region One or more hypervariable region(s) of the bacterial 16S gene: V3-V5

Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance: Roche454

Statistical Analysis

Statistical test: Negative Binomial Regression

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

Chao1 Abundance-based estimator of species richness: unchanged

Richness Number of species: unchanged

Signature 1

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Source: Figure 2a

Description: Significant associations between food sensitization and bacterial genera. The log2 fold change is plotted for each bacterial genus significantly associated with food sensitization

Abundance in Group 1: decreased abundance in child with food sensitization

NCBI	Quality Control	Links
Haemophilus
Dialister
Dorea
Clostridium

Revision editor(s): WikiWorks

Experiment 2

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Differences from previous experiment shown

Subjects

Group 0 name Corresponds to the control (unexposed) group for case-control studies: no food allergy

Group 1 name Corresponds to the case (exposed) group for case-control studies: child with food allergy

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: child with healthcare provider-diagnosed allergy to milk, egg, peanut, wheat, soy, or other nut allergy prior to age 3 years with evidence of IgE sensitization to that food (>0.1 kU/L) at age 3 years

Group 0 sample size Number of subjects in the control (unexposed) group: 202

Group 1 sample size Number of subjects in the case (exposed) group: 14

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

Richness Number of species: unchanged

Signature 1

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Reviewed Marked as Reviewed by Atrayees on 2023-7-19

Curated date: 2021/01/10

Curator: Lucy Mellor

Revision editor(s): WikiWorks

Source: Figure 2b

Description: Significant associations between food allergy and bacterial genera. The log2 fold change is plotted for each bacterial genus significantly associated with food allergy

Abundance in Group 1: decreased abundance in child with food allergy

NCBI	Quality Control	Links
Citrobacter
Oscillospira
Lactococcus
Dorea

Revision editor(s): WikiWorks