The influence of in vitro pectin fermentation on the human fecal microbiome

Study information

Reviewed Marked as Reviewed by Folakunmi on 2024-1-19

study design

time series / longitudinal observational

Citation

PMID PubMed identifier for scientific articles.

29909506

DOI Digital object identifier for electronic documents.

10.1186/s13568-018-0629-9

URI

Authors

Bang SJ, Kim G, Lim MY, Song EJ, Jung DH, Kum JS, Nam YD, Park CS, Seo DH

Journal

AMB Express

Year

2018

Keywords:

Fecal microbiota, Fermentation, Pectin, Prebiotic, Short chain fatty acids

Pectin is a complex dietary fiber and a prebiotic. To investigate pectin-induced changes in the gut microbiome and their effects on the short chain fatty acids (SCFAs) production, we performed in vitro pectin fermentation using the feces of three Korean donors. The pectin degradations in all three donors were observed. While the donors displayed differences in baseline gut microbiota composition, commonly increased bacteria after pectin fermentation included Lachnospira, Dorea, Clostridium, and Sutterella. Regarding SCFAs, acetate levels rapidly increased with incubation with pectin, and butyrate levels also increased after 6 h of incubation. The results suggest that pectin fermentation increases bacterial species belonging to Clostridium cluster XIV (Lachnospira, Dorea, and Clostridium), with Lachnospira displaying the greatest increase. The results also confirm that pectin fermentation leads to the production of acetate and butyrate.

Experiment 1

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Reviewed Marked as Reviewed by Folakunmi on 2024-1-19

Curated date: 2021/01/10

Curator: WikiWorks

Revision editor(s): WikiWorks, Folakunmi

Subjects

Location of subjects: South Korea

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: late pectin incubation time

Group 1 name Corresponds to the case (exposed) group for case-control studies: early pectin incubation time

Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group: before/early pectin incubation

Group 0 sample size Number of subjects in the control (unexposed) group: 3

Group 1 sample size Number of subjects in the case (exposed) group: 3

Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any): 6 months

Lab analysis

Sequencing type: 16S

16S variable region One or more hypervariable region(s) of the bacterial 16S gene: V1-V2

Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance: Ion Torrent

Statistical Analysis

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

Statistical test: Linear Regression

Significance threshold p-value or FDR threshold used for differential abundance testing (if any): 0.1

MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?: Yes

Signature 1

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Curated date: 2021/01/10

Curator: Lora Kasselman

Revision editor(s): WikiWorks

Source: Figure 4 and text

Description: Significantly changed taxa according to pectin incubation time (q value < 0.1)

Abundance in Group 1: increased abundance in early pectin incubation time

NCBI	Quality Control	Links
Bifidobacterium
Coriobacteriaceae
Coprobacillus
Peptostreptococcaceae
Oxalobacter
Christensenellaceae
Clostridiaceae
Odoribacter
Coprococcus
Butyricimonas
Ruminococcus
Anaerostipes
Blautia
Parabacteroides
Phascolarctobacterium
Roseburia
Rikenellaceae
Bacteroides