REFERENCES

1. Rostagno MH. Managing intestinal health in farm animals: a critical view. In: Kogut, MH, Zhang G, Editors. Gut microbiota, immunity, and health in production animals. The microbiome of humans, animals, plants, and the environment. Switzerland: Springer, Cham; 2022. pp. 1-12.

2. Ducatelle R, Goossens E, Eeckhaut V, Van Immerseel F. Poultry gut health and beyond. Animal Nutrition. 2023;13:240-8.

3. Zhao X, Jiang L, Fang X, et al. Host-microbiota interaction-mediated resistance to inflammatory bowel disease in pigs. Microbiome. 2022;10:115.

4. Gomes MDS, Duarte ME, Saraiva A, De Oliveira LL, Teixeira LM, Rocha GC. Effect of antibiotics and low-crude protein diets on growth performance, health, immune response, and fecal microbiota of growing pigs. J Anim Sci. 2023;101:skad357.

5. Sandrini S, Perricone V, Cremonesi P, et al. Yeast mixture supplementation modulates faecal microbiota and ileum morphology of weaning pigs. animal. 2024;18:101275.

6. Kousar S, Chand N, Naz S, et al. In vitro and in vivo effects of methanolic extract of dietary ginger (Zingiber officinale) and onion (Allium cepa) supplementation on growth performance and fecal microbiota in Escherichia coli infected broiler chickens. Livestock Science. 2024;281:105416.

7. Knudsen KEB, Jensen BB, Hansen I. Digestion of polysaccharides and other major components in the small and large intestine of pigs fed on diets consisting of oat fractions rich in β-D-glucan. Br J Nutr. 2007;70:537-56.

8. Regassa A, Nyachoti CM. Application of resistant starch in swine and poultry diets with particular reference to gut health and function. Animal Nutrition. 2018;4:305-10.

9. Pluske JR, Hampson DJ, Williams IH. Factors influencing the structure and function of the small intestine in the weaned pig: a review. Livest Prod Sci. 1997;51:215-36.

10. Belkaid Y, Hand TW. Role of the microbiota in immunity and inflammation. Cell. 2014;157:121-41.

11. Frese SA, Parker K, Calvert CC, Mills DA. Diet shapes the gut microbiome of pigs during nursing and weaning. Microbiome. 2015;3:28.

12. Zhao Q, Maynard CL. Mucus, commensals, and the immune system. Gut Microbes. 2022;14:2041342.

13. Mowat AM, Agace WW. Regional specialization within the intestinal immune system. Nat Rev Immunol. 2014;14:667-85.

14. Crespo-piazuelo D, Estellé J, Revilla M, et al. Characterization of bacterial microbiota compositions along the intestinal tract in pigs and their interactions and functions. Sci Rep. 2018;8:12727.

15. Kelly J, Daly K, Moran AW, Ryan S, Bravo D, Shirazi‐beechey SP. Composition and diversity of mucosa‐associated microbiota along the entire length of the pig gastrointestinal tract; dietary influences. Environ Microbiol. 2017;19:1425-38.

16. Gresse R, Chaucheyras Durand F, Dunière L, Blanquet-diot S, Forano E. Microbiota composition and functional profiling throughout the gastrointestinal tract of commercial weaning piglets. Microorganisms. 2019;7:343.

17. Daniel N, Lécuyer E, Chassaing B. Host/microbiota interactions in health and diseases - time for mucosal microbiology! Mucosal Immunol. 2021;14:1006-16.

18. Luis AS, Hansson GC. Intestinal mucus and their glycans: a habitat for thriving microbiota. Cell Host Microbe. 2023;31:1087-100.

19. Zong W, Friedman ES, Allu SR, et al. Disruption of intestinal oxygen balance in acute colitis alters the gut microbiome. Gut Microbes. 2024;16:2361493.

20. Aitchison J. The Statistical Analysis of Compositional Data. J. R. STAT. SOC. B. 1982;44:139-60.

21. Zaramela LS, Tjuanta M, Moyne O, Neal M, Zengler K. synDNA - a synthetic DNA spike-in method for absolute quantification of shotgun metagenomic sequencing. mSystems. 2022;7:e00447-22.

22. Sung JY, Choi H, Gormley AR, Kim SW. Quantification of the absolute abundance of the jejunal mucosa-associated microbiota of pigs using spike-in control. Microbiome Res Rep. 2026;5;5.

Microbiome Research Reports
ISSN 2771-5965 (Online)

Portico

All published articles are preserved here permanently:

https://www.portico.org/publishers/oae/

Portico

All published articles are preserved here permanently:

https://www.portico.org/publishers/oae/