Page 72 - Read Online
P. 72
Poznyak et al. Microbiome Res Rep. 2026;5:3 Page 19 of 23
94. Smith CJ, Sayles H, Mikuls TR, Michaud K. Minocycline and doxycycline therapy in community patients with rheumatoid arthritis:
prescribing patterns, patient-level determinants of use, and patient-reported side effects. Arthritis Res Ther. 2011;13:R168. DOI PubMed
PMC
95. Nayak RR. Fanning the flames of autoimmunity: the microbiome in rheumatic disease. Arthritis Rheumatol. 2022;74:549-52. DOI
PubMed PMC
96. Cusumano G, Flores GA, Venanzoni R, Angelini P. The impact of antibiotic therapy on intestinal microbiota: dysbiosis, antibiotic
resistance, and restoration strategies. Antibiotics (Basel). 2025;14:371. DOI PubMed PMC
97. Scherer HU, Häupl T, Burmester GR. The etiology of rheumatoid arthritis. J Autoimmun. 2020;110:102400. DOI PubMed
98. Xu H, Zhao H, Fan D, et al. Interactions between gut microbiota and immunomodulatory cells in rheumatoid arthritis. Mediators
Inflamm. 2020;2020:1430605. DOI PubMed PMC
99. Koester ST, Chow A, Pepper-Tunick E, et al. Familial clustering of dysbiotic oral and fecal microbiomes in juvenile dermatomyositis.
Sci Rep. 2024;14:16158. DOI PubMed PMC
100. Berthelot JM, Bandiaky ON, Le Goff B, et al. Another look at the contribution of oral microbiota to the pathogenesis of rheumatoid
arthritis: a narrative review. Microorganisms. 2021;10:59. DOI PubMed PMC
101. Danckert NP, Freidin MB, Granville Smith I, et al. Treatment response in rheumatoid arthritis is predicted by the microbiome: a large
observational study in UK DMARD-naive patients. Rheumatology (Oxford). 2024;63:3486-95. DOI PubMed PMC
102. Volkova A, Ruggles KV. Predictive metagenomic analysis of autoimmune disease identifies robust autoimmunity and disease specific
microbial signatures. Front Microbiol. 2021;12:621310. DOI PubMed PMC
103. Peters BA, Wilson M, Moran U, et al. Relating the gut metagenome and metatranscriptome to immunotherapy responses in melanoma
patients. Genome Med. 2019;11:61. DOI PubMed PMC
104. Nayak RR, Alexander M, Deshpande I, et al. Methotrexate impacts conserved pathways in diverse human gut bacteria leading to
decreased host immune activation. Cell Host Microbe. 2021;29:362-377.e11. DOI PubMed PMC
105. Chen YC, Hou CY, Hsu MH, Huang LT, Hsiao CC, Sheen JM. The impact of gut microbiota changes on methotrexate-induced
neurotoxicity in developing young rats. Biomedicines. 2024;12:908. DOI PubMed PMC
106. Letertre MPM, Munjoma N, Wolfer K, et al. A two-way interaction between methotrexate and the gut microbiota of male
Sprague-Dawley rats. J Proteome Res. 2020;19:3326-39. DOI PubMed PMC
107. Crouwel F, Buiter HJC, de Boer NK. Gut microbiota-driven drug metabolism in inflammatory bowel disease. J Crohns Colitis.
2021;15:307-15. DOI PubMed PMC
108. Lima SF, Pires S, Rupert A, et al. The gut microbiome regulates the clinical efficacy of sulfasalazine therapy for IBD-associated
spondyloarthritis. Cell Rep Med. 2024;5:101431. DOI PubMed PMC
109. Wang X, Peng J, Cai P, et al. The emerging role of the gut microbiota and its application in inflammatory bowel disease. Biomed
Pharmacother. 2024;179:117302. DOI
110. McIlroy J, Ianiro G, Mukhopadhya I, Hansen R, Hold GL. Review article: the gut microbiome in inflammatory bowel disease-avenues
for microbial management. Aliment Pharmacol Ther. 2018;47:26-42. DOI PubMed
111. Zaragoza-García O, Castro-Alarcón N, Pérez-Rubio G, Guzmán-Guzmán IP. DMARDs-gut microbiota feedback: implications in the
response to therapy. Biomolecules. 2020;10:1479. DOI PubMed PMC
112. Zhang L, Chu CQ. Gut microbiota-medication interaction in rheumatic diseases. Front Immunol. 2021;12:796865. DOI PubMed PMC
113. Bodkhe R, Balakrishnan B, Taneja V. The role of microbiome in rheumatoid arthritis treatment. Ther Adv Musculoskelet Dis.
2019;11:1759720X19844632. DOI PubMed PMC
114. Cohen I, Ruff WE, Longbrake EE. Influence of immunomodulatory drugs on the gut microbiota. Transl Res. 2021;233:144-61. DOI
PubMed PMC
115. Mei L, Yang Z, Zhang X, et al. Sustained drug treatment alters the gut microbiota in rheumatoid arthritis. Front Immunol.
2021;12:704089. DOI PubMed PMC
116. Gianchecchi E, Fierabracci A. Recent advances on microbiota involvement in the pathogenesis of autoimmunity. Int J Mol Sci.
2019;20:283. DOI PubMed PMC
117. Peng J, Lu X, Xie K, et al. Dynamic alterations in the gut microbiota of collagen-induced arthritis rats following the prolonged
administration of total glucosides of paeony. Front Cell Infect Microbiol. 2019;9:204. DOI PubMed PMC
118. Yurtseven B, Aydemir E, Ayaz F. The role of intestinal microbiota and immune system interactions in autoimmune diseases.
Immunotargets Ther. 2025;14:1347-72. DOI PubMed PMC
119. Bhattacharjee P, Karim KA, Khan Z. Harnessing the microbiome: a comprehensive review on advancing therapeutic strategies for
rheumatic diseases. Cureus. 2023;15:e50964. DOI PubMed PMC
120. Oliveira SR, de Arruda JAA, Corrêa JD, et al. Methotrexate and non-surgical periodontal treatment change the oral-gut microbiota in
rheumatoid arthritis: a prospective cohort study. Microorganisms. 2023;12:68. DOI PubMed PMC

