Microbial enterotypes, inferred by the prevotella-to-bacteroides ratio, remained stable during a 6-month randomized controlled diet intervention with the new nordic diet

Study information

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

study design

randomized controlled trial

Citation

PMID PubMed identifier for scientific articles.

24296500

DOI Digital object identifier for electronic documents.

10.1128/AEM.03549-13

URI

Authors

Roager HM, Licht TR, Poulsen SK, Larsen TM, Bahl MI

Journal

Applied and environmental microbiology

Year

2014

It has been suggested that the human gut microbiota can be divided into enterotypes based on the abundance of specific bacterial groups; however, the biological significance and stability of these enterotypes remain unresolved. Here, we demonstrated that subjects (n = 62) 18 to 65 years old with central obesity and components of metabolic syndrome could be grouped into two discrete groups simply by their relative abundance of Prevotella spp. divided by Bacteroides spp. (P/B ratio) obtained by quantitative PCR analysis. Furthermore, we showed that these groups remained stable during a 6-month, controlled dietary intervention, where the effect of consuming a diet in accord with the new Nordic diet (NND) recommendations as opposed to consuming the average Danish diet (ADD) on the gut microbiota was investigated. In this study, subjects (with and without stratification according to P/B ratio) did not reveal significant changes in 35 selected bacterial taxa quantified by quantitative PCR (ADD compared to NND) resulting from the dietary interventions. However, we found higher total plasma cholesterol within the high-P/B group than in the low-P/B group after the intervention. We propose that stratification of humans based simply on their P/B ratio could allow better assessment of possible effects of interventions on the gut microbiota and physiological biomarkers.

Experiment 1

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Reviewed Marked as Reviewed by Fatima on 2021/07/16

Curated date: 2021/01/10

Curator: WikiWorks

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Subjects

Location of subjects: Denmark

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: Diet Dietary,Diets,Diet,diet

Group 0 name Corresponds to the control (unexposed) group for case-control studies: before Average Danish Diet

Group 1 name Corresponds to the case (exposed) group for case-control studies: 6 months after Average Danish Diet

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: the dietary intervention study of the NND compared to the ADD was performed as a 6-month, nonblinded, parallel, randomized, controlled, ad libitum dietary intervention trial and was carried out between October 2010 and July 2011.

Group 0 sample size Number of subjects in the control (unexposed) group: 26

Group 1 sample size Number of subjects in the case (exposed) group: 26

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: RT-qPCR

Statistical Analysis

Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).: raw counts

Statistical test: T-Test

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

Signature 1

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

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Curator: Lora Kasselman

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Source: Figure S3

Description: Changes in bacterial groups following the diet intervention within A) Firmicutes, B) Bacteroidetes, C) Actinobacteria, and D) γ-proteobacteria and other bacterial groups for the two diet groups ADD (n = 26, white bars) and NND (n = 36, black bars). Columns show means of log2 transformed data and error bars represent standard errors of the means. Asterisks indicate a significant difference (q < 0.05) compared to baseline. BCoAT: Butyryl-CoA:acetate CoAtransferase, NND: New Nordic Diet, ADD: Average Danish

Abundance in Group 1: increased abundance in 6 months after Average Danish Diet

NCBI	Quality Control	Links
Anaerobutyricum hallii
Actinomycetota
Desulfovibrio

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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: before New Nordic Diet

Group 1 name Corresponds to the case (exposed) group for case-control studies: 6 months after New Nordic Diet

Group 0 sample size Number of subjects in the control (unexposed) group: 36

Group 1 sample size Number of subjects in the case (exposed) group: 36

Lab analysis

Statistical Analysis

Signature 1

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Source: Figure S3

Description: Changes in bacterial groups following the diet intervention within A) Firmicutes, B) Bacteroidetes, C) Actinobacteria, and D) γ-proteobacteria and other bacterial groups for the two diet groups ADD (n = 26, white bars) and NND (n = 36, black bars). Columns show means of log2 transformed data and error bars represent standard errors of the means. Asterisks indicate a significant difference (q < 0.05) compared to baseline. BCoAT: Butyryl-CoA:acetate CoAtransferase, NND: New Nordic Diet, ADD: Average Danish

Abundance in Group 1: increased abundance in 6 months after New Nordic Diet

NCBI	Quality Control	Links
Clostridium
Anaerobutyricum hallii
Lactobacillus acidophilus
Actinomycetota
Escherichia coli
Desulfovibrio

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Signature 2

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

Curated date: 2021/01/10

Curator: Shaimaa Elsafoury

Revision editor(s): WikiWorks

Source: Figure S3

Description: Changes in bacterial groups following the diet intervention within A) Firmicutes, B) Bacteroidetes, C) Actinobacteria, and D) γ-proteobacteria and other bacterial groups for the two diet groups ADD (n = 26, white bars) and NND (n = 36, black bars). Columns show means of log2 transformed data and error bars represent standard errors of the means. Asterisks indicate a significant difference (q < 0.05) compared to baseline. BCoAT: Butyryl-CoA:acetate CoAtransferase, NND: New Nordic Diet, ADD: Average Danish

Abundance in Group 1: decreased abundance in 6 months after New Nordic Diet

NCBI	Quality Control	Links
Alistipes
Methanobrevibacter smithii

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