Fecal microbiota transplantation modulates jejunal host-microbiota interface in weanling piglets
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Study information
-
Quality control
- Retracted paper
- Contamination issues suspected
- Batch effect issues suspected
- Uncontrolled confounding suspected
- Results are suspect (various reasons)
- Tags applied
study design
Citation
PMID PubMed identifier for scientific articles.
DOI Digital object identifier for electronic documents.
URI Uniform resource identifier for web resources.
Authors
Mooyottu S, Muyyarikkandy MS, Yousefi F, Li G, Sahin O, Burrough E, Scaria J, Sponseller B, Ramirez A
Journal
Microbiome
Year
2025
Keywords:
Fecal microbiota transplantation, Postweaning diarrhea, Weanling piglets
BACKGROUND: Weaning-associated enteric diseases are a major concern in the swine industry. This study investigates the effects of fecal microbiota transplantation (FMT) on the jejunum of weanling piglets, a segment of bowel less studied in terms of microbiomic changes despite its primary involvement in major post-weaning enteric diseases, including postweaning diarrhea (PWD). Thirty-two 3-week-old piglets were divided equally into two groups: Control and FMT. The FMT group received fecal microbiota preparation from 3-month-old healthy pigs on the 1st and 3rd day after weaning. Half of each group was inoculated with an enterotoxigenic E. coli (ETEC) isolate 10 days post-FMT. Piglets were euthanized in the third week (14th and 18th days post-FMT) after weaning to collect intestinal tissues and contents for microbiomic, metabolomic, and transcriptomic analyses. RESULTS: The jejunal microbiota showed a significant increase in alpha diversity in the third week post-FMT compared with the ileum and colon. FMT significantly enriched the jejunal microbiota composition, while multiple bacterial genera were specifically lacking in control weanling piglets. FMT was strongly associated with the enrichment of the genus Pseudoscardovia of the Bifidobacteriaceae family, which was found lacking in the jejunum of weanling control piglets and inversely associated with the abundance of the genus Bifidobacterium within the same family. Other genera associated with FMT included Solobacterium, Shuttleworthia, and Pseudoraminibacter, whereas bacteria such as Erysipelotrichaceae and Acidaminococcus were identified as most abundant in the control piglets. Metabolomic analysis revealed a significant modulatory effect of FMT on carbohydrate, amino acid, nucleotide, vitamin, and xenobiotic metabolisms, suggesting improved nutrient utilization. Transcriptomic analyses further confirmed the regulatory effects of FMT on gene expression associated with immune, metabolic, barrier, and neuroendocrine functions. Prior FMT treatment in the context of ETEC infection indicated a potential protective role, as evidenced by a significant shift in microbial diversity and metabolomic compositions and decreased diarrhea severity even though no effect on pathogen shedding was evident. CONCLUSIONS: This study underscores the promise of FMT in enhancing jejunal health. In addition, the results suggest that FMT could be considered a potential strategy to address conditions associated with small intestinal dysbiosis in swine and other monogastric species with similar gut anatomy and physiology, such as humans. Video Abstract.
Experiment 2
Reviewed Marked as Reviewed by Svetlana up on 2025-3-10
Differences from previous experiment shown
Subjects
- Location of subjects
- United States of America
- Host species Species from which microbiome was sampled. Contact us to have more species added.
- Sus scrofa domesticus
- Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
- Jejunum Intestinum jejunum,Mid-intestine,Middle intestine,Jejunum,jejunum
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Clinical treatment Clinical treatment,clinical treatment
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Enterotoxigenic Escherichia coli (ETEC) challenge control group (EC)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- FMT-EC challenge group (FMT + EC)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Enterotoxigenic Escherichia coli challenge (ETEC) group that received fecal microbiota preparation from 3-month-old healthy pigs on the 1st and 3rd day after weaning.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 6
- Group 1 sample size Number of subjects in the case (exposed) group
- 6
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)
- 0.1
- 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
- decreased
- Chao1 Abundance-based estimator of species richness
- decreased
Signature 1
Reviewed Marked as Reviewed by Svetlana up on 2025-3-10
Source: Figure 9F, Supplementary Material 3
Description: Bacterial genera differentially abundant in ETEC-infected control piglets (EC) and ETEC-infected piglets that received prior FMT treatment (FMT-EC).
Abundance in Group 1: increased abundance in FMT-EC challenge group (FMT + EC)
Revision editor(s): Taofeecoh, Aleru Divine
Signature 2
Reviewed Marked as Reviewed by Svetlana up on 2025-3-10
Source: Figure 9F, Supplementary Material 3
Description: Bacterial genera differentially abundant in ETEC-infected control piglets (EC) and ETEC-infected piglets that received prior FMT treatment (FMT-EC).
Abundance in Group 1: decreased abundance in FMT-EC challenge group (FMT + EC)
Revision editor(s): Taofeecoh
Experiment 3
Reviewed Marked as Reviewed by Svetlana up on 2025-3-10
Differences from previous experiment shown
Subjects
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Control group
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Fecal microbiota transplantation (FMT) group.
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- 3-week-old piglets that received fecal microbiota preparation from 3-month-old healthy pigs on the 1st and 3rd day after weaning.
Lab analysis
Statistical Analysis
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- increased
- Chao1 Abundance-based estimator of species richness
- increased
Signature 1
Reviewed Marked as Reviewed by Svetlana up on 2025-3-10
Source: Figures 1B, 2C, Supplementary Material 3
Description: Differentially abundant taxa between control and Fecal microbiota transplantation (FMT) groups.
Abundance in Group 1: increased abundance in Fecal microbiota transplantation (FMT) group.
Revision editor(s): Taofeecoh
Signature 2
Reviewed Marked as Reviewed by Svetlana up on 2025-3-10
Source: Figures 1B, 2C, Supplementary Material 3
Description: Differentially abundant taxa between control and Fecal microbiota transplantation (FMT) groups.
Abundance in Group 1: decreased abundance in Fecal microbiota transplantation (FMT) group.
Revision editor(s): Taofeecoh
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