REFERENCES

1. Jovel J, Dieleman LA, Kao D, Mason AL, Wine E. The human gut microbiome in health and disease. Metagenomics. Elsevier; 2018. pp. 197-213.

2. Heintz-Buschart A, Wilmes P. Human gut microbiome: function matters. Trends Microbiol. 2018;26:563-74.

3. Amabebe E, Robert FO, Agbalalah T, Orubu ESF. Microbial dysbiosis-induced obesity: role of gut microbiota in homoeostasis of energy metabolism. Br J Nutr. 2020;123:1127-37.

4. Stadlbauer V, Engertsberger L, Komarova I, et al. Dysbiosis, gut barrier dysfunction and inflammation in dementia: a pilot study. BMC Geriatr. 2020;20:248.

5. Rogers GB, Keating DJ, Young RL, Wong ML, Licinio J, Wesselingh S. From gut dysbiosis to altered brain function and mental illness: mechanisms and pathways. Mol Psychiatry. 2016;21:738-48.

6. Tamboli CP, Neut C, Desreumaux P, Colombel JF. Dysbiosis in inflammatory bowel disease. Gut. 2004;53:1-4.

7. John GK, Mullin GE. The gut microbiome and obesity. Curr Oncol Rep. 2016;18:45.

8. Verbunt J, Stassen FRM. Probiotic membrane vesicles: emerging tools for disease treatment. Microbiome Res Rep. 2025;4:25.

9. Bielka W, Przezak A, Pawlik A. The role of the gut microbiota in the pathogenesis of diabetes. Int J Mol Sci. 2022;23:480.

10. Toyofuku M, Schild S, Kaparakis-Liaskos M, Eberl L. Composition and functions of bacterial membrane vesicles. Nat Rev Microbiol. 2023;21:415-30.

11. Doré E, Boilard E. Bacterial extracellular vesicles and their interplay with the immune system. Pharmacol Ther. 2023;247:108443.

12. Bitto NJ, Chapman R, Pidot S, et al. Bacterial membrane vesicles transport their DNA cargo into host cells. Sci Rep. 2017;7:7072.

13. Gao Q, Zhou W, Nurxat N, et al. Dynamic profiling of lipoteichoic acid (LTA) and/or lipopolysaccharide (LPS) positive extracellular vesicles in plasma as diagnostic and prognostic biomarkers for bacterial infection. Adv Sci. 2025;Epub ahead of print.

14. Díaz-Garrido N, Badia J, Baldomà L. Microbiota-derived extracellular vesicles in interkingdom communication in the gut. J Extracell Vesicles. 2021;10:e12161.

15. Kameli N, Borman R, Lpez-Iglesias C, Savelkoul P, Stassen FRM. Characterization of feces-derived bacterial membrane vesicles and the impact of their origin on the inflammatory response. Front Cell Infect Microbiol. 2021;11:667987.

16. Théry C, Witwer KW, Aikawa E, et al. Minimal information for studies of extracellular vesicles 2018 (MISEV2018): a position statement of the International Society for Extracellular Vesicles and update of the MISEV2014 guidelines. J Extracell Vesicles. 2018;7:1535750.

17. Barriga MF, Randolph JWJ, Glassman SI. Not all is lost: resilience of microbiome samples to freezer failures and long-term storage. mSphere. 2025;10:e0060324.

18. Rius-sansalvador B, Bars-cortina D, Khannous-lleiffe O, et al. Stability of oral and fecal microbiome at room temperature: impact on diversity. Front Microbiomes. 2025;4:1334775.

19. Caporaso JG, Lauber CL, Walters WA, et al. Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms. ISME J. 2012;6:1621-4.

20. Peterson GL. A simplification of the protein assay method of Lowry et al. which is more generally applicable. Anal Biochem. 1977;83:346-56.

21. Barnett D, Arts I, Penders J. microViz: an R package for microbiome data visualization and statistics. JOSS. 2021;6:3201.

22. Tap J, Cools-Portier S, Pavan S, et al. Effects of the long-term storage of human fecal microbiota samples collected in RNAlater. Sci Rep. 2019;9:601.

23. Kim JH, Jeon JY, Im YJ, et al. Long-term taxonomic and functional stability of the gut microbiome from human fecal samples. Sci Rep. 2023;13:114.

24. Cabrera P, Bokulich NA, Zimmermann P. Evaluating stool microbiome integrity after domestic freezer storage using whole-metagenome sequencing, genome assembly, and antimicrobial resistance gene analysis. Microbiol Spectr. 2025;13:e0227824.

25. Olson J, Whitney DH, Durkee K, Shuber AP. DNA stabilization is critical for maximizing performance of fecal DNA-based colorectal cancer tests. Diagn Mol Pathol. 2005;14:183-91.

26. Devan SS, Ramli R, Alshehade SA, Lim SYM, Mamat N. Comparison of the techniques for isolating immunoassay-suitable proteins from heterogeneous fecal samples. Anal Biochem. 2025;698:115748.

27. Armand M. Lipases and lipolysis in the human digestive tract: where do we stand? Curr Opin Clin Nutr Metab Care. 2007;10:156-64.

28. Bitto NJ, Cheng L, Johnston EL, et al. Staphylococcus aureus membrane vesicles contain immunostimulatory DNA, RNA and peptidoglycan that activate innate immune receptors and induce autophagy. J Extracell Vesicles. 2021;10:e12080.

29. Kaparakis M, Turnbull L, Carneiro L, et al. Bacterial membrane vesicles deliver peptidoglycan to NOD1 in epithelial cells. Cell Microbiol. 2010;12:372-85.

30. Li J, Li C, Han Y, et al. Unveiling a novel mechanism of enhanced secretion, cargo loading, and accelerated dynamics of bacterial extracellular vesicles following antibiotic exposure. J Extracell Vesicles. 2025;14:e70131.

31. Domingues S, Nielsen KM. Membrane vesicles and horizontal gene transfer in prokaryotes. Curr Opin Microbiol. 2017;38:16-21.

32. Zhou Z, Sun L, Tu Y, et al. Exploring naturally tailored bacterial outer membrane vesicles for selective bacteriostatic implant coatings. Adv Sci. 2024;11:e2405764.

33. Sandanusova M, Turkova K, Pechackova E, et al. Growth phase matters: boosting immunity via Lacticasebacillus-derived membrane vesicles and their interactions with TLR2 pathways. J Extracell Biol. 2024;3:e169.

34. Burt M, Angelidou G, Mais CN, et al. Lipid A in outer membrane vesicles shields bacteria from polymyxins. J Extracell Vesicles. 2024;13:e12447.

35. Avila-Calderón ED, Ruiz-Palma MDS, Aguilera-Arreola MG, et al. Outer membrane vesicles of gram-negative bacteria: an outlook on biogenesis. Front Microbiol. 2021;12:557902.