# Human Microbiota-Associated Pig Models for Translational Microbiome Research: A Scoping Review

**Authors:** Seong-Jin Wang, Hao-Yang Nian, Zhi-Hao Chen, Li Cui

PMC · DOI: 10.3390/ijms27041987 · International Journal of Molecular Sciences · 2026-02-19

## TL;DR

This review explores how human microbiota-associated pig models can help bridge preclinical and translational research, focusing on methods and challenges.

## Contribution

The study provides a systematic evaluation and proposes a minimal reporting framework to standardize HMA pig model protocols.

## Key findings

- HMA pig models show promise for translational microbiome research but require standardized protocols.
- Variation in establishment methods affects microbiota engraftment outcomes in pigs.
- Factors influencing colonization efficiency and model reproducibility are identified.

## Abstract

The human microbiota-associated (HMA) pig model provides a physiologically relevant platform that bridges preclinical and translational research. However, its use remains limited, with existing studies showing considerable variation in establishment methods. This scoping review systematically evaluates methodological frameworks, engraftment outcomes, and research applications of HMA pig models. Additionally, it highlights their strengths, limitations, and implications for future studies. We conducted a comprehensive literature search in PubMed, Web of Science, Scopus, and Directory of Open Access Journals, following PRISMA guidelines for Scoping Reviews. The review examines the methodological foundations of HMA pig model generation and proposes a minimal reporting framework to promote standardization. It synthesizes studies on human microbiota engraftment in pigs, identifying factors that influence colonization efficiency. Finally, it summarizes current applications, discusses persistent limitations and translational challenges, and outlines opportunities for future research. Overall, these integrated insights aim to foster standardized, reproducible protocols for HMA pig model preparation and guide advancements in the field.

## Linked entities

- **Species:** Homo sapiens (taxon 9606), Sus scrofa (taxon 9823)

## Full-text entities

- **Genes:** TNF (tumor necrosis factor) [NCBI Gene 397086] {aka TNFSF2, TNFa}, PCNA (proliferating cell nuclear antigen) [NCBI Gene 692192], IL6 (interleukin 6) [NCBI Gene 399500] {aka IL-6}, FOXP3 (forkhead box P3) [NCBI Gene 444998], IFN-ALPHA-14 (interferon-alpha-14) [NCBI Gene 100310804] {aka IFN-alpha}, IL4 (interleukin 4) [NCBI Gene 397225], CHGA (chromogranin A) [NCBI Gene 397540], SOX9 (SRY-box transcription factor 9) [NCBI Gene 396840] {aka SOX-9}, ACE2 (angiotensin converting enzyme 2) [NCBI Gene 100144303], IDO1 (indoleamine 2,3-dioxygenase 1) [NCBI Gene 100519877] {aka IDO}, IFNG (interferon gamma) [NCBI Gene 396991], TLR2 (Toll-like receptor 2 level) [NCBI Gene 101055400]
- **Diseases:** inflammatory bowel diseases (MESH:D015212), renal dysfunction (MESH:D007674), necrotizing enterocolitis (MESH:D020345), depression (MESH:D003866), obese (MESH:D009765), RIFM (MESH:D005242), weight gain (MESH:D015430), constipation (MESH:D003248), diarrhea (MESH:D003967), PCM (MESH:D011502), enteric viral infections (MESH:D053489), metabolic abnormalities (MESH:D008659), neurological disorders (MESH:D009461), infectious diseases (MESH:D003141), chronic disease (MESH:D002908), ulcerative colitis (MESH:D003093), HMA (MESH:D016263), cardiometabolic disease (MESH:D024821), inflammation (MESH:D007249), C. difficile infection (MESH:D003015), injury to (MESH:D014947), disease (MESH:D004194), norovirus infection (MESH:D017250), stunted (MESH:D006130), AIMD (MESH:D004761), Protein malnutrition (MESH:D044342), eczema (MESH:D004485), IAV infection (MESH:D007251), neurodevelopmental (MESH:D008607), autism spectrum disorder (MESH:D000067877), immune (MESH:D007154), gastrointestinal (MESH:D005767), diabetes (MESH:D003920), gut infection (MESH:D007239), psychiatric conditions (MESH:D001523), anxiety (MESH:D001007), neuroinflammation (MESH:D000090862), schizophrenia (MESH:D012559), asthma (MESH:D001249), chronic kidney disease (MESH:D051436), weight (MESH:D015431), autism (MESH:D001321)
- **Chemicals:** water (MESH:D014867), ampicillin (MESH:D000667), sucrose (MESH:D013395), lipid (MESH:D008055), L-cysteine (MESH:D003545), vancomycin (MESH:D014640), tryptophan (MESH:D014364), kynurenine (MESH:D007737), dextranomer (MESH:C013471), neomycin (MESH:D009355), SCFA (MESH:D005232), bile acid (MESH:D001647), NaCl (MESH:D012965), sodium bicarbonate (MESH:D017693), HMA (-), Glycerol (MESH:D005990), oxygen (MESH:D010100), carbohydrate (MESH:D002241), metronidazole (MESH:D008795), fructo-oligosaccharides (MESH:C116580)
- **Species:** Bacillota (clostridial firmicutes, phylum) [taxon 1239], Bifidobacterium adolescentis (species) [taxon 1680], Shigella (genus) [taxon 620], Rothia mucilaginosa (species) [taxon 43675], Phocaeicola plebeius (species) [taxon 310297], Bos taurus (bovine, species) [taxon 9913], Phascolarctobacterium (genus) [taxon 33024], Human rotavirus (species) [taxon 1906931], Pseudomonadota (proteobacteria, phylum) [taxon 1224], Sus scrofa (pig, species) [taxon 9823], Taenia solium (pig tapeworm, species) [taxon 6204], Rotavirus (genus) [taxon 10912], Influenza A virus (no rank) [taxon 11320], Klebsiella (genus) [taxon 570], Clostridium neonatale (species) [taxon 137838], Bacteroidia (class) [taxon 200643], Shewanella algae (species) [taxon 38313], Sesamum indicum (beniseed, species) [taxon 4182], Limosilactobacillus reuteri (species) [taxon 1598], gut metagenome (species) [taxon 749906], Ruminococcus (genus) [taxon 1263], Cutibacterium acnes (species) [taxon 1747], Cryptosporidium (genus) [taxon 5806], Norovirus (genus) [taxon 142786], Clostridium perfringens (species) [taxon 1502], Salmonella (genus) [taxon 590], Bacillus cereus (species) [taxon 1396], Dialister (genus) [taxon 39948], Escherichia coli (E. coli, species) [taxon 562], Segatella copri (species) [taxon 165179], Escherichia coli Nissle 1917 (strain) [taxon 316435], Lactococcus (lactic streptococci, genus) [taxon 1357], Mus musculus (house mouse, species) [taxon 10090], Homo sapiens (human, species) [taxon 9606], Faecalibacterium prausnitzii (species) [taxon 853], Clostridioides difficile (species) [taxon 1496], Rodentia (rodent, order) [taxon 9989], Lacticaseibacillus rhamnosus GG (strain) [taxon 568703]

## Full text

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## Figures

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## References

157 references — full list in the complete paper: https://tomesphere.com/paper/PMC12940510/full.md

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Source: https://tomesphere.com/paper/PMC12940510