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Article

Fecal Microbiome Changes and Specific Anti-Bacterial Response in Patients with IBD during Anti-TNF Therapy

1
Institute of Microbiology of the Czech Academy of Sciences, 142 20 Prague, Czech Republic
2
IBD Clinical and Research Centre ISCARE a.s., 190 00 Prague, Czech Republic
3
Dermatovenerology Department, Second Faculty of Medicine, University Hospital Bulovka, Charles University in Prague, 180 81 Prague, Czech Republic
4
Institute for Clinical and Experimental Medicine of the Czech Academy of Science, 140 21 Prague, Czech Republic
5
Institute of Medical Biochemistry and Laboratory Diagnostics, General University Hospital and First Faculty of Medicine, Charles University in Prague, 128 08 Prague, Czech Republic
*
Author to whom correspondence should be addressed.
Academic Editor: Laura Grasa
Cells 2021, 10(11), 3188; https://doi.org/10.3390/cells10113188
Received: 23 October 2021 / Revised: 11 November 2021 / Accepted: 12 November 2021 / Published: 16 November 2021
Inflammatory bowel diseases (IBD) are chronic disorders of the gastrointestinal tract that have been linked to microbiome dysbiosis and immune system dysregulation. We investigated the longitudinal effect of anti-TNF therapy on gut microbiota composition and specific immune response to commensals in IBD patients. The study included 52 patients tracked over 38 weeks of therapy and 37 healthy controls (HC). To characterize the diversity and composition of the gut microbiota, we used amplicon sequencing of the V3V4 region of 16S rRNA for the bacterial community and of the ITS1 region for the fungal community. We measured total antibody levels as well as specific antibodies against assorted gut commensals by ELISA. We found diversity differences between HC, Crohn’s disease, and ulcerative colitis patients. The bacterial community of patients with IBD was more similar to HC at the study endpoint, suggesting a beneficial shift in the microbiome in response to treatment. We identified factors such as disease severity, localization, and surgical intervention that significantly contribute to the observed changes in the gut bacteriome. Furthermore, we revealed increased IgM levels against specific gut commensals after anti-TNF treatment. In summary, this study, with its longitudinal design, brings insights into the course of anti-TNF therapy in patients with IBD and correlates the bacterial diversity with disease severity in patients with ulcerative colitis (UC). View Full-Text
Keywords: inflammatory bowel disease; biological therapy; tumor necrosis factor-α; microbiome; mycobiome inflammatory bowel disease; biological therapy; tumor necrosis factor-α; microbiome; mycobiome
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MDPI and ACS Style

Schierova, D.; Roubalova, R.; Kolar, M.; Stehlikova, Z.; Rob, F.; Jackova, Z.; Coufal, S.; Thon, T.; Mihula, M.; Modrak, M.; Kverka, M.; Bajer, L.; Kostovcikova, K.; Drastich, P.; Hercogova, J.; Novakova, M.; Vasatko, M.; Lukas, M.; Tlaskalova-Hogenova, H.; Jiraskova Zakostelska, Z. Fecal Microbiome Changes and Specific Anti-Bacterial Response in Patients with IBD during Anti-TNF Therapy. Cells 2021, 10, 3188. https://doi.org/10.3390/cells10113188

AMA Style

Schierova D, Roubalova R, Kolar M, Stehlikova Z, Rob F, Jackova Z, Coufal S, Thon T, Mihula M, Modrak M, Kverka M, Bajer L, Kostovcikova K, Drastich P, Hercogova J, Novakova M, Vasatko M, Lukas M, Tlaskalova-Hogenova H, Jiraskova Zakostelska Z. Fecal Microbiome Changes and Specific Anti-Bacterial Response in Patients with IBD during Anti-TNF Therapy. Cells. 2021; 10(11):3188. https://doi.org/10.3390/cells10113188

Chicago/Turabian Style

Schierova, Dagmar, Radka Roubalova, Martin Kolar, Zuzana Stehlikova, Filip Rob, Zuzana Jackova, Stepan Coufal, Tomas Thon, Martin Mihula, Martin Modrak, Miloslav Kverka, Lukas Bajer, Klara Kostovcikova, Pavel Drastich, Jana Hercogova, Michaela Novakova, Martin Vasatko, Milan Lukas, Helena Tlaskalova-Hogenova, and Zuzana Jiraskova Zakostelska. 2021. "Fecal Microbiome Changes and Specific Anti-Bacterial Response in Patients with IBD during Anti-TNF Therapy" Cells 10, no. 11: 3188. https://doi.org/10.3390/cells10113188

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