[1]
|
Matsuoka, K. and Kanai, T. (2015) The Gut Microbiota and Inflammatory Bowel Disease. Seminars in Immunopatholo-gy, 37, 47-55. https://doi.org/10.1007/s00281-014-0454-4
|
[2]
|
Ungaro, R., Mehandru, S., Allen, P.B., et al. (2017) Ulcerative Colitis. The Lancet, 389, 1756-1770.
https://doi.org/10.1016/S0140-6736(16)32126-2
|
[3]
|
Roda, G., Chien Ng, S., Kotze, P.G., et al. (2020) Crohn’s Disease. Nature Reviews Disease Primers, 6, Article No. 22.
https://doi.org/10.1038/s41572-020-0156-2
|
[4]
|
Ng, S.C., Shi, H.Y., Hamidi, N., et al. (2017) Worldwide Inci-dence and Prevalence of Inflammatory Bowel Disease in the 21st Century: A Systematic Review of Population-Based Studies. The Lancet, 390, 2769-2778.
https://doi.org/10.1016/S0140-6736(17)32448-0
|
[5]
|
Lu, Y., Li, X., Liu, S., et al. (2018) Toll-Like Receptors and Inflammatory Bowel Disease. Frontiers in Immunology, 9, Article No. 72. https://doi.org/10.3389/fimmu.2018.00072
|
[6]
|
Pan, X., Zhu, Q., Pan, L.-L., et al. (2022) Macrophage Im-munometabolism in Inflammatory Bowel Diseases: From Pathogenesis to Therapy. Pharmacology & Therapeutics, 238, Article ID: 108176.
https://doi.org/10.1016/j.pharmthera.2022.108176
|
[7]
|
Neumann, C., Scheffold, A. and Rutz, S. (2019) Functions and Regulation of T Cell-Derived Interleukin-10. Seminars in Immunology, 44, Article ID: 101344. https://doi.org/10.1016/j.smim.2019.101344
|
[8]
|
Sharifinejad, N., Zaki-Dizaji, M., Sepahvandi, R., et al. (2022) The Clinical, Molecular, and Therapeutic Features of Patients with IL10/IL10R Deficiency: A Systematic Review. Clini-cal & Experimental Immunology, 208, 281-291.
https://doi.org/10.1093/cei/uxac040
|
[9]
|
Yu, B., Yin, Y.-X., Tang, Y.-P., et al. (2021) Diagnostic and Predictive Value of Immune-Related Genes in Crohn’s Disease. Frontiers in Immunology, 12, Article ID: 643036. https://doi.org/10.3389/fimmu.2021.643036
|
[10]
|
Xu, M., Kong, Y., Chen, N., et al. (2022) Identification of Im-mune-Related Gene Signature and Prediction of CeRNA Network in Active Ulcerative Colitis. Frontiers in Immunology, 13, Article ID: 855645.
https://doi.org/10.3389/fimmu.2022.855645
|
[11]
|
Langfelder, P. and Horvath, S. (2008) WGCNA: An R Package for Weighted Correlation Network Analysis. BMC Bioinformatics, 9, Article No. 559. https://doi.org/10.1186/1471-2105-9-559
|
[12]
|
Newman, A.M., Liu, C.L., Green, M.R., et al. (2015) Robust Enu-meration of Cell Subsets from Tissue Expression Profiles. Nature Methods, 12, 453-457. https://doi.org/10.1038/nmeth.3337
|
[13]
|
Sham, H.P., Bazett, M., Bosiljcic, M., et al. (2018) Immune Stimulation Using a Gut Microbe-Based Immunotherapy Reduces Disease Pathology and Improves Barrier Function in Ulcerative Colitis. Frontiers in Immunology, 9, Article No. 2211. https://doi.org/10.3389/fimmu.2018.02211
|
[14]
|
Di Jiang, C. and Raine, T. (2020) IBD Considerations in Spondyloarthritis. Therapeutic Advances in Musculoskeletal Disease, 12. https://doi.org/10.1177/1759720X20939410
|
[15]
|
Malik, T. and Mannon, P. (2012) Inflammatory Bowel Diseases: Emerging Therapies and Promising Molecular Targets. Frontiers in Bioscience (Scholar Edition), 4, 1172-1189. https://doi.org/10.2741/s324
|
[16]
|
Grasberger, H., Gao, J., Nagao-Kitamoto, H., et al. (2015) Increased Expression of DUOX2 Is an Epithelial Response to Mucosal Dysbiosis Required for Immune Homeostasis in Mouse Intestine. Gastroenterology, 149, 1849-1859.
https://doi.org/10.1053/j.gastro.2015.07.062
|
[17]
|
Haberman, Y., Tickle, T.L., Dexheimer, P.J., et al. (2014) Pediat-ric Crohn Disease Patients Exhibit Specific Ileal Transcriptome and Microbiome Signature. Journal of Clinical Investiga-tion, 124, 3617-3633.
https://doi.org/10.1172/JCI75436
|
[18]
|
Grasberger, H., Magis, A.T., Sheng, E., et al. (2021) DUOX2 Variants Associate with Preclinical Disturbances in Microbiota-Immune Homeostasis and Increased Inflammatory Bowel Disease Risk. Journal of Clinical Investigation, 131, e141676. https://doi.org/10.1172/JCI141676
|
[19]
|
He, P., Yu, L., Tian, F., et al. (2022) Dietary Patterns and Gut Microbiota: The Crucial Actors in Inflammatory Bowel Disease. Advances in Nutrition, 13, 1628-1651. https://doi.org/10.1093/advances/nmac029
|
[20]
|
Thorsvik, S., Damås, J.K., Granlund, A.V., et al. (2017) Fecal Neutrophil Gelatinase-Associated Lipocalin as a Biomarker for Inflammatory Bowel Disease. Journal of Gastroenterology and Hepatology, 32, 128-135.
https://doi.org/10.1111/jgh.13598
|
[21]
|
Thorsvik, S., Bakke, I., van Beelen Granlund, A., et al. (2018) Expression of Neutrophil Gelatinase-Associated Lipocalin (NGAL) in the Gut in Crohn’s Disease. Cell and Tissue Research, 374, 339-348.
https://doi.org/10.1007/s00441-018-2860-8
|
[22]
|
Zollner, A., Schmiderer, A., Reider, S.J., et al. (2021) Faecal Bi-omarkers in Inflammatory Bowel Diseases: Calprotectin versus Lipocalin-2—A Comparative Study. Journal of Crohn’s and Colitis, 15, 43-54.
https://doi.org/10.1093/ecco-jcc/jjaa124
|
[23]
|
Chakraborty, S., Kaur, S., Guha, S., et al. (2012) The Multifaceted Roles of Neutrophil Gelatinase Associated Lipocalin (NGAL) in Inflammation and Cancer. Biochimica et Biophysica Ac-ta, 1826, 129-169.
https://doi.org/10.1016/j.bbcan.2012.03.008
|
[24]
|
Behnsen, J., Jellbauer, S., Wong, C.P., et al. (2014) The Cytokine IL-22 Promotes Pathogen Colonization by Suppressing Related Commensal Bacteria. Immunity, 40, 262-273. https://doi.org/10.1016/j.immuni.2014.01.003
|
[25]
|
Xiao, X., Yeoh, B.S. and Vijay-Kumar, M. (2017) Lipocalin 2: An Emerging Player in Iron Homeostasis and Inflammation. Annual Review of Nutrition, 37, 103-130. https://doi.org/10.1146/annurev-nutr-071816-064559
|
[26]
|
Kortman, G.A.M., Mulder, M.L.M., Richters, T.J.W., et al. (2015) Low Dietary Iron Intake Restrains the Intestinal Inflammatory Response and Pathology of Enteric Infection by Food-Borne Bacterial Pathogens. European Journal of Immunology, 45, 2553-2567. https://doi.org/10.1002/eji.201545642
|
[27]
|
Playford, R.J., Belo, A., Poulsom, R., et al. (2006) Effects of Mouse and Human Lipocalin Homologues 24p3/lcn2 and Neutrophil Gelatinase-Associated Lipocalin on Gastrointestinal Mu-cosal Integrity and Repair. Gastroenterology, 131, 809-817. https://doi.org/10.1053/j.gastro.2006.05.051
|
[28]
|
Toyonaga, T., Matsuura, M., Mori, K., et al. (2016) Lipocalin 2 Prevents Intestinal Inflammation by Enhancing Phagocytic Bacterial Clearance in Macrophages. Scientific Reports, 6, Ar-ticle No. 35014.
https://doi.org/10.1038/srep35014
|
[29]
|
Mori, K., Suzuki, T., Minamishima, S., et al. (2016) Neutrophil Gelati-nase-Associated Lipocalin Regulates Gut Microbiota of Mice. Journal of Gastroenterology and Hepatology, 31, 145-154. https://doi.org/10.1111/jgh.13042
|
[30]
|
Yan, L., Borregaard, N., Kjeldsen, L., et al. (2001) The High Molecular Weight Urinary Matrix Metalloproteinase (MMP) Activity Is a Complex of Gelatinase B/MMP-9 and Neutrophil Gelati-nase-Associated Lipocalin (NGAL). Modulation of MMP-9 Activity by NGAL. Journal of Biological Chemistry, 276, 37258-3765.
https://doi.org/10.1074/jbc.M106089200
|
[31]
|
Makhezer, N., Ben Khemis, M., Liu, D., et al. (2019) NOX1-Derived ROS Drive the Expression of Lipocalin-2 in Colonic Epithelial Cells in Inflammatory Conditions. Mu-cosal Immunology, 12, 117-131.
https://doi.org/10.1038/s41385-018-0086-4
|
[32]
|
Rajarathnam, K., Schnoor, M., Richardson, R.M., et al. (2019) How Do Chemokines Navigate Neutrophils to the Target Site: Dissecting the Structural Mechanisms and Signaling Pathways. Cell Signal, 54, 69-80.
https://doi.org/10.1016/j.cellsig.2018.11.004
|
[33]
|
Relton, C.L. and Davey Smith, G. (2010) Epigenetic Epidemiol-ogy of Common Complex Disease: Prospects for Prediction, Prevention, and Treatment. PLOS Medicine, 7, e1000356. https://doi.org/10.1371/journal.pmed.1000356
|
[34]
|
Sæterstad, S., Østvik, A.E., Røyset, E.S., et al. (2022) Pro-found Gene Expression Changes in the Epithelial Monolayer of Active Ulcerative Colitis and Crohn’s Disease. PLOS ONE, 17, e0265189.
https://doi.org/10.1371/journal.pone.0265189
|
[35]
|
Ball, H.J., Jusof, F.F., Bakmiwewa, S.M., et al. (2014) Trypto-phan-Catabolizing Enzymes—Party of Three. Frontiers in Immunology, 5, Article No. 485. https://doi.org/10.3389/fimmu.2014.00485
|
[36]
|
Mellor, A.L. and Munn, D.H. (2004) IDO Expression by Dendrit-ic Cells: Tolerance and Tryptophan Catabolism. Nature Reviews Immunology, 4, 762-774. https://doi.org/10.1038/nri1457
|
[37]
|
Nikolaus, S., Schulte, B., Al-Massad, N., et al. (2017) Increased Tryptophan Metabolism Is Associated with Activity of Inflammatory Bowel Diseases. Gastroenterology, 153, 1504-1516.e2. https://doi.org/10.1053/j.gastro.2017.08.028
|
[38]
|
Chen, W., Liang, X., Peterson, A.J., et al. (2008) The Indoleam-ine 2,3-Dioxygenase Pathway Is Essential for Human Plasmacytoid Dendritic Cell-Induced Adaptive T Regulatory Cell Generation. The Journal of Immunology, 181, 5396-5404. https://doi.org/10.4049/jimmunol.181.8.5396
|
[39]
|
Lin, Y., Yang, X., Yue, W., et al. (2014) Chemerin Aggravates DSS-Induced Colitis by Suppressing M2 Macrophage Polar-ization. Cellular & Molecular Immunology, 11, 355-366. https://doi.org/10.1038/cmi.2014.15
|
[40]
|
Shon, W.-J., Lee, Y.-K., Shin, J.H., et al. (2015) Severity of DSS-Induced Colitis Is Reduced in Ido1-Deficient Mice with Down-Regulation of TLR-MyD88-NF-κB Transcriptional Networks. Scientific Reports, 5, Article No. 17305.
https://doi.org/10.1038/srep17305
|
[41]
|
Bai, X., Liu, W., Chen, H., et al. (2022) Immune Cell Landscaping Reveals Distinct Immune Signatures of Inflammatory Bowel Disease. Frontiers in Immunology, 13, Article ID: 861790. https://doi.org/10.3389/fimmu.2022.861790
|
[42]
|
Wéra, O., Lancellotti, P. and Oury, C. (2016) The Dual Role of Neutrophils in Inflammatory Bowel Diseases. Journal of Clinical Medicine, 5, Article No. 118. https://doi.org/10.3390/jcm5120118
|
[43]
|
Roda, G., Jharap, B., Neeraj, N., et al. (2016) Loss of Response to An-ti-TNFs: Definition, Epidemiology, and Management. Clinical and Translational Gastroenterology, 7, e135. https://doi.org/10.1038/ctg.2015.63
|
[44]
|
Vos, A.C.W., Wildenberg, M.E., Arijs, I., et al. (2012) Regulatory Mac-rophages Induced by Infliximab Are Involved in Healing in Vivo and in Vitro. Inflammatory Bowel Diseases, 18, 401-408. https://doi.org/10.1002/ibd.21818
|
[45]
|
Du, Y., Rong, L., Cong, Y., et al. (2021) Macrophage Polarization: An Effective Approach to Targeted Therapy of Inflammatory Bowel Disease. Expert Opinion on Therapeutic Targets, 25, 191-209.
https://doi.org/10.1080/14728222.2021.1901079
|
[46]
|
Endharti, A.T., Okuno, Y., Shi, Z., et al. (2011) CD8+CD122+ Regulatory T Cells (Tregs) and CD4+ Tregs Cooperatively Prevent and Cure CD4+ Cell-Induced Colitis. The Journal of Immunology, 186, 41-52.
https://doi.org/10.4049/jimmunol.1000800
|
[47]
|
Rabe, H., Malmquist, M., Barkman, C., et al. (2019) Distinct Pat-terns of Naive, Activated and Memory T and B Cells in Blood of Patients with Ulcerative Colitis or Crohn’s Disease. Clinical & Experimental Immunology, 197, 111-129.
https://doi.org/10.1111/cei.13294
|
[48]
|
Clough, J.N., Omer, O.S., Tasker, S., et al. (2020) Regulatory T-Cell Ther-apy in Crohn’s Disease: Challenges and Advances. Gut, 69, 942-952. https://doi.org/10.1136/gutjnl-2019-319850
|
[49]
|
Mottet, C., Uhlig, H.H. and Powrie, F. (2003) Cutting Edge: Cure of Colitis by CD4+CD25+ Regulatory T Cells. The Journal of Immunology, 170, 3939-3943. https://doi.org/10.4049/jimmunol.170.8.3939
|