Taxonomic Characterization and Short-Chain Fatty Acids Production of the Obese Microbiota

Study information

Reviewed Marked as Reviewed by Peace Sandy on 2024-1-15

study design

case-control

Citation

PMID PubMed identifier for scientific articles.

34222034

DOI Digital object identifier for electronic documents.

10.3389/fcimb.2021.598093

URI

https://pubmed.ncbi.nlm.nih.gov/34222034/

Authors

Martínez-Cuesta MC, Del Campo R, Garriga-García M, Peláez C, Requena T

Journal

Frontiers in cellular and infection microbiology

Year

2021

Keywords:

diversity, in vitro incubations, metabolic activity, microbiota, obesity, short-chain fatty acids

Intestinal microbiota seems to play a key role in obesity. The impact of the composition and/or functionality of the obesity-associated microbiota have yet to be fully characterized. This work assessed the significance of the taxonomic composition and/or metabolic activity of obese- microbiota by massive 16S rRNA gene sequencing of the fecal microbiome of obese and normoweight individuals. The obese metabolic activity was also assessed by in vitro incubation of obese and normoweight microbiotas in nutritive mediums with different energy content. We found that the microbiome richness and diversity of the two groups did not differ significantly, except for Chao1 index, significantly higher in normoweight individuals. At phylum level, neither the abundance of Firmicutes or Bacteroidetes nor their ratio was associated with the body mass index. Besides, the relative proportions in Collinsella, Clostridium XIVa, and Catenibacterium were significantly enriched in obese participants, while Alistipes, Clostridium sensu stricto, Romboutsia, and Oscillibacter were significantly diminished. In regard to metabolic activity, short-chain fatty acids content was significant higher in obese individuals, with acetate being the most abundant followed by propionate and butyrate. Acetate and butyrate production was also higher when incubating obese microbiota in mediums mimicking diets with different energy content; interestingly, a reduced capability of propionate production was associated to the obese microbiome. In spite of the large interindividual variability, the obese phenotype seems to be defined more by the abundance and/or the absence of distinct communities of microorganism rather than by the presence of a specific population.

Experiment 1

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Curated date: 2023/11/07

Curator: Aleru002

Revision editor(s): Aleru002, Peace Sandy, WikiWorks

Subjects

Location of subjects: Spain

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

Group 0 name Corresponds to the control (unexposed) group for case-control studies: Normal weight volunteers (N)

Group 1 name Corresponds to the case (exposed) group for case-control studies: Obese Volunteers (O)

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: Obese adult volunteers with body mass index (BMI) > 30 kg/m^2

Group 0 sample size Number of subjects in the control (unexposed) group: 13

Group 1 sample size Number of subjects in the case (exposed) group: 13

Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any): Volunteers who were on antibiotics six (6) months preceding the sample collection were excluded from the study

Lab analysis

Sequencing type: 16S

16S variable region One or more hypervariable region(s) of the bacterial 16S gene: V3-V4

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)?: No

LDA Score above Threshold for the linear discriminant analysis (LDA) score for studies using the popular LEfSe tool: 3

Alpha Diversity

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

Chao1 Abundance-based estimator of species richness: decreased

Signature 1

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Reviewed Marked as Reviewed by Peace Sandy on 2024-1-15

Curated date: 2023/11/07

Curator: Aleru002

Revision editor(s): Aleru002, Peace Sandy, WikiWorks

Source: Figure 5

Description: The significant differences in gut microbiota composition in normal weight (N) and obese (O) subjects.

Abundance in Group 1: increased abundance in Obese Volunteers (O)

NCBI	Quality Control	Links
Abiotrophia
Aerococcaceae
Catenibacterium
Collinsella
Coprobacillus
Negativicutes
Selenomonadales
Slackia
Solobacterium

Revision editor(s): Aleru002, Peace Sandy, WikiWorks

Signature 2

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Reviewed Marked as Reviewed by Peace Sandy on 2024-1-15

Curated date: 2023/11/07

Curator: Aleru002

Revision editor(s): Aleru002, Peace Sandy, WikiWorks

Source: Figure 5

Description: The significant differences in gut microbiota composition in normal weight (N) and obese (O) subjects.

Abundance in Group 1: decreased abundance in Obese Volunteers (O)

NCBI	Quality Control	Links
Alistipes
Anaerotruncus
Bacillota
Bacillus sp. (in: firmicutes)
Bacteria
Barnesiella
Campylobacter
Campylobacteraceae
Clostridia
Clostridiaceae
Clostridiaceae bacterium
Clostridiales bacterium
Clostridium
Coriobacteriaceae
Ezakiella
Flavobacteriales
Flavobacteriia
Fusobacteriales
Fusobacteriia
Hydrogenoanaerobacterium
Oscillibacter
Oscillospiraceae
Oxalobacteraceae
Parasutterella
Peptoniphilaceae
Peptoniphilus
Peptostreptococcaceae
Peptostreptococcaceae bacterium
Porphyromonas
Rhodospirillales
Rikenellaceae
Romboutsia
Sporobacter
Subdoligranulum
Turicibacter
Verrucomicrobiota

Revision editor(s): Aleru002, Peace Sandy, WikiWorks