39 results on '"Dipayan Rudra"'
Search Results
2. Signaling networks controlling ID and E protein activity in T cell differentiation and function
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Sung-Min Hwang, Sin-Hyeog Im, and Dipayan Rudra
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E proteins ,ID proteins ,E-ID axis ,T cell differentiation ,T cell function ,regulatory T (Treg) cells ,Immunologic diseases. Allergy ,RC581-607 - Abstract
E and inhibitor of DNA binding (ID) proteins are involved in various cellular developmental processes and effector activities in T cells. Recent findings indicate that E and ID proteins are not only responsible for regulating thymic T cell development but also modulate the differentiation, function, and fate of peripheral T cells in multiple immune compartments. Based on the well-established E and ID protein axis (E-ID axis), it has been recognized that ID proteins interfere with the dimerization of E proteins, thus restricting their transcriptional activities. Given this close molecular relationship, the extent of expression or stability of these two protein families can dynamically affect the expression of specific target genes involved in multiple aspects of T cell biology. Therefore, it is essential to understand the endogenous proteins or extrinsic signaling pathways that can influence the dynamics of the E-ID axis in a cell-specific and context-dependent manner. Here, we provide an overview of E and ID proteins and the functional outcomes of the E-ID axis in the activation and function of multiple peripheral T cell subsets, including effector and memory T cell populations. Further, we review the mechanisms by which endogenous proteins and signaling pathways alter the E-ID axis in various T cell subsets influencing T cell function and fate at steady-state and in pathological settings. A comprehensive understanding of the functions of E and ID proteins in T cell biology can be instrumental in T cell-specific targeting of the E-ID axis to develop novel therapeutic modalities in the context of autoimmunity and cancer.
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- 2022
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3. Structural specificities of cell surface β-glucan polysaccharides determine commensal yeast mediated immuno-modulatory activities
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Changhon Lee, Ravi Verma, Seohyun Byun, Eun-Ji Jeun, Gi-Cheon Kim, Suyoung Lee, Hye-Ji Kang, Chan Johng Kim, Garima Sharma, Abhishake Lahiri, Sandip Paul, Kwang Soon Kim, Dong Soo Hwang, Yoichiro Iwakura, Immacolata Speciale, Antonio Molinaro, Cristina De Castro, Dipayan Rudra, and Sin-Hyeog Im
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Science - Abstract
Yeast form part of the host microbiome with known impact on host immunity. Here the authors identify and investigate the impact of commensal yeast-derived polysaccharides in modulating host inflammation, and show its potential for inhibiting inflammation in a number of models of inflammatory diseases.
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- 2021
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4. Dietary Glucose Consumption Promotes RALDH Activity in Small Intestinal CD103+CD11b+ Dendritic Cells
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Hyun-Ja Ko, Sung-Wook Hong, Ravi Verma, Jisun Jung, Minji Lee, Nahyun Kim, Daeun Kim, Charles D. Surh, Kwang Soon Kim, Dipayan Rudra, and Sin-Hyeog Im
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retinal dehydrogenase (RALDH) ,regulatory T cells (Treg) ,dendritic cells (DCs) ,LP-DCs ,retinoic acid (RA) ,vitamin A ,Immunologic diseases. Allergy ,RC581-607 - Abstract
Retinal dehydrogenase (RALDH) enzymatic activities catalyze the conversion of vitamin A to its metabolite Retinoic acid (RA) in intestinal dendritic cells (DCs) and promote immunological tolerance. However, precise understanding of the exogenous factors that act as initial trigger of RALDH activity in these cells is still evolving. By using germ-free (GF) mice raised on an antigen free (AF) elemental diet, we find that certain components in diet are critically required to establish optimal RALDH expression and activity, most prominently in small intestinal CD103+CD11b+ DCs (siLP-DCs) right from the beginning of their lives. Surprisingly, systematic screens using modified diets devoid of individual dietary components indicate that proteins, starch and minerals are dispensable for this activity. On the other hand, in depth comparison between subtle differences in dietary composition among different dietary regimes reveal that adequate glucose concentration in diet is a critical determinant for establishing RALDH activity specifically in siLP-DCs. Consequently, pre-treatment of siLP-DCs, and not mesenteric lymph node derived MLNDCs with glucose, results in significant enhancement in the in vitro generation of induced Regulatory T (iTreg) cells. Our findings reveal previously underappreciated role of dietary glucose concentration in establishing regulatory properties in intestinal DCs, thereby extending a potential therapeutic module against intestinal inflammation.
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- 2020
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5. ETS1 Suppresses Tumorigenesis of Human Breast Cancer via Trans-Activation of Canonical Tumor Suppressor Genes
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Gi-Cheon Kim, Choong-Gu Lee, Ravi Verma, Dipayan Rudra, Taemook Kim, Keunsoo Kang, Jong Hee Nam, Young Kim, Sin-Hyeog Im, and Ho-Keun Kwon
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ETS1 ,breast cancer ,tumor suppressor ,DNA methylation ,regulatory elements ,Neoplasms. Tumors. Oncology. Including cancer and carcinogens ,RC254-282 - Abstract
ETS1 has shown dichotomous roles as an oncogene and a tumor suppressor gene in diverse cancers, but its functionality in breast cancer tumorigenesis still remains unclear. We utilized the Cancer Genome Atlas (TCGA) database to analyze comprehensive functions of ETS1 in human breast cancer (BRCA) patients by investigating its expression patterns and methylation status in relation to clinical prognosis. ETS1 expression was significantly diminished by hyper-methylation of the ETS1 promoter region in specimens from BRCA patients compared to a healthy control group. Moreover, ETS1high BRCA patients showed better prognosis and longer survival compared to ETS1low BRCA patients. Consistent with clinical evidence, comparative transcriptome analysis combined with CRISPR/Cas9 or shRNA based perturbation of ETS1 expression revealed direct as well as indirect mechanisms of ETS1 that hinder tumorigenesis of BRCA cells. Taken together, our study enlightens a novel function of ETS1 as a tumor suppressor in breast cancer cells.
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- 2020
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6. Inflammation-induced Id2 promotes plasticity in regulatory T cells
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Sung-Min Hwang, Garima Sharma, Ravi Verma, Seohyun Byun, Dipayan Rudra, and Sin-Hyeog Im
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Science - Abstract
Regulatory T (Treg) cells may lose the expression of their master transcription factor, Foxp3, and be converted to pro-inflammatory cells. Here the authors show that this lineage plasticity may be mediated by the enhanced expression of another transcription regulator, Id2, which suppresses the transcription of Foxp3 to alter Treg lineage stability.
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- 2018
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7. The transcription factor Foxp1 preserves integrity of an active Foxp3 locus in extrathymic Treg cells
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Sayantani Ghosh, Sinchita Roy-Chowdhuri, Keunsoo Kang, Sin-Hyeog Im, and Dipayan Rudra
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Science - Abstract
Regulatory T (Treg) cells suppress immune cell activation to maintain immune homeostasis, and have their lineage enforced by the master transcription factor Foxp3. Here the authors show that Foxp3 expression is promoted and maintained by a related family member, Foxp1, specifically in peripherally induced Treg but not in Treg cells of thymic origin.
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- 2018
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8. KLK5 induces shedding of DPP4 from circulatory Th17 cells in type 2 diabetes
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Titli Nargis, Krishna Kumar, Amrit Raj Ghosh, Amit Sharma, Dipayan Rudra, Debrup Sen, Saikat Chakrabarti, Satinath Mukhopadhyay, Dipyaman Ganguly, and Partha Chakrabarti
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DPP4 ,KLK5 ,PBMC ,T2DM ,Th17 cells ,Internal medicine ,RC31-1245 - Abstract
Objective: Increasing plasma levels and activity of dipeptidyl peptidase-4 (DPP4 or CD26) are associated with rapid progression of metabolic syndrome to overt type 2 diabetes mellitus (T2DM). While DPP4 inhibitors are increasingly used as anti-hyperglycemic agents, the reason for the increase in plasma DPP4 activity in T2DM patients remains elusive. Methods: We looked into the source of plasma DPP4 activity in a cohort of 135 treatment naive nonobese (BMI
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- 2017
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9. Emerging Functions of Regulatory T Cells in Tissue Homeostasis
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Amit Sharma and Dipayan Rudra
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immune tolerance ,autoimmunity ,regulatory T cells ,regulatory T-cells ,Foxp3 ,tissue Treg ,Immunologic diseases. Allergy ,RC581-607 - Abstract
CD4+Foxp3+ regulatory T-cells (Tregs) are a unique subset of helper T-cells, which regulate immune response and establish peripheral tolerance. Tregs not only maintain the tone and tenor of an immune response by dominant tolerance but, in recent years, have also been identified as key players in resolving tissue inflammation and as mediators of tissue healing. Apart from being diverse in their origin (thymic and peripheral) and location (lymphoid and tissue resident), Tregs are also phenotypically heterogeneous as per the orientation of ongoing immune response. In this review, we discuss the recent advances in the field of Treg biology in general, and non-lymphoid and tissue-resident Tregs in particular. We elaborate upon well-known visceral adipose tissue, colon, skin, and tumor-infiltrating Tregs and newly identified tissue Treg populations as in lungs, skeletal muscle, placenta, and other tissues. Our attempt is to differentiate Tregs based on distinctive properties of their location, origin, ligand specificity, chemotaxis, and specific suppressive mechanisms. Despite ever expanding roles in maintaining systemic homeostasis, Tregs are employed by large varieties of tumors to dampen antitumor immunity. Thus, a comprehensive understanding of Treg biology in the context of inflammation can be instrumental in effectively managing tissue transplantation, autoimmunity, and antitumor immune responses.
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- 2018
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10. Lactobacillus helveticus suppresses experimental rheumatoid arthritis by reducing inflammatory T cell responses
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Jung-Eun Kim, Chang Suk Chae, Gi-Cheon Kim, Won Hwang, Ji-sun Hwang, Sung-Min Hwang, Young Kim, Young-Tae Ahn, Sung-Gyoo Park, Chang-Duk Jun, Dipayan Rudra, and Sin-Hyeog Im
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Cytokine ,Inflammation ,Immune modulation ,Probiotics ,Rheumatoid arthritis ,Nutrition. Foods and food supply ,TX341-641 - Abstract
Although probiotics could confer health benefits to host physiology, their efficacy is strain specific. To identify anti-inflammatory probiotics, an ex vivo screening system was developed, and validated effector functions of selected candidates using experimental rheumatoid arthritis as an in vivo model. Lactobacillus helveticus HY7801 was selected as the best candidate. Oral administration of L. helveticus HY7801 prevented the development of collagen-induced experimental arthritis, and diminished disease progression and severity by reducing antigen specific IgG levels and inflammatory immune response. Administration of L. helveticus HY7801 may induce regulatory CD11c+ dendritic cells, which in turn induce a phenotypic alteration of immune cells by reducing pro-inflammatory cytokines (TNF-α, IFN-γ, and IL-17A) while enhancing anti-inflammatory cytokine (IL-10) by CD4+ T cells. This study suggests that screening of probiotic strains based on the IL-10highIL-12low selection criterion may be applicable to identify anti-inflammatory probiotics as an efficacious food for treating inflammatory immune responses including rheumatoid arthritis.
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- 2015
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11. Non-Lymphoid Functions of Regulatory T cells in Health and Disease
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Dipayan Rudra, Paula D. Bos, and Akihiko Yoshimura
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- 2023
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12. Advances and challenges in CAR-T cell-mediated immunotherapy
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Dipayan, Rudra and Himanshu, Kumar
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T-Lymphocytes ,Neoplasms ,Immunology ,Receptors, Antigen, T-Cell ,Humans ,Immunology and Allergy ,Immunotherapy ,Immunotherapy, Adoptive - Published
- 2022
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13. Regulatory T cells as therapeutic targets and mediators
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Amit Sharma and Dipayan Rudra
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0301 basic medicine ,Immunology ,chemical and pharmacologic phenomena ,Context (language use) ,Biology ,medicine.disease_cause ,Immunotherapy, Adoptive ,T-Lymphocytes, Regulatory ,Autoimmunity ,Immunomodulation ,Cell therapy ,03 medical and health sciences ,0302 clinical medicine ,Immune system ,T-Lymphocyte Subsets ,Immunity ,Neoplasms ,Immune Tolerance ,medicine ,Animals ,Humans ,Immunology and Allergy ,Molecular Targeted Therapy ,Transcription factor ,Tissue homeostasis ,Clinical Trials as Topic ,FOXP3 ,hemic and immune systems ,biochemical phenomena, metabolism, and nutrition ,Combined Modality Therapy ,Treatment Outcome ,030104 developmental biology ,030220 oncology & carcinogenesis ,bacteria ,Biomarkers - Abstract
With the advent of the concept of dominant tolerance and the subsequent discovery of CD4+ regulatory T cells expressing the transcription factor FOXP3 (Tregs), almost all productive as well as nonproductive immune responses can be compartmentalized to a binary of immune effector T cells and immune regulatory Treg populations. A beneficial immune response warrants the timely regulation by Tregs, whereas a nonproductive immune response indicates insufficient effector functions or an outright failure of tolerance. There are ample reports supporting role of Tregs in suppressing spontaneous auto-immune diseases as well as promoting immune evasion by cancers. To top up their importance, several non-immune functions like tissue homeostasis and regeneration are also being attributed to Tregs. Hence, after being in the center stage of basic and translational immunological research, Tregs are making the next jump towards clinical studies. Therefore, newer small molecules, biologics as well as adoptive cell therapy (ACT) approaches are being tested to augment or undermine Treg responses in the context of autoimmunity and cancer. In this brief review, we present the strategies to modulate Tregs towards a favorable clinical outcome.
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- 2019
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14. Structural specificities of cell surface β-glucan polysaccharides determine commensal yeast mediated immuno-modulatory activities
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Cristina De Castro, Sin-Hyeog Im, Ravi Verma, Immacolata Speciale, Dipayan Rudra, Sandip Paul, Eun-Ji Jeun, Dong Soo Hwang, Yoichiro Iwakura, Seohyun Byun, Garima Sharma, Antonio Molinaro, Kwang Soon Kim, Suyoung Lee, Abhishake Lahiri, Gi-Cheon Kim, Changhon Lee, Hye-Ji Kang, Chan Johng Kim, Lee, C., Verma, R., Byun, S., Jeun, E. -J., Kim, G. -C., Lee, S., Kang, H. -J., Kim, C. J., Sharma, G., Lahiri, A., Paul, S., Kim, K. S., Hwang, D. S., Iwakura, Y., Speciale, I., Molinaro, A., De Castro, C., Rudra, D., and Im, S. -H.
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Fungal infection ,CD4-Positive T-Lymphocytes ,0301 basic medicine ,beta-Glucans ,Cell ,General Physics and Astronomy ,T-Lymphocytes, Regulatory ,Mannans ,Mice ,0302 clinical medicine ,Polysaccharide ,Glucans ,Mannan ,chemistry.chemical_classification ,Mice, Knockout ,Multidisciplinary ,Chemistry ,Effector ,Experimental autoimmune encephalomyelitis ,Cell Differentiation ,Homeodomain Protein ,Colitis ,Glucan ,Cell biology ,medicine.anatomical_structure ,Th1 Cell ,CD4-Positive T-Lymphocyte ,030220 oncology & carcinogenesis ,Infection ,Pattern recognition receptors ,Encephalomyelitis, Autoimmune, Experimental ,Science ,Immunology ,Saccharomyces cerevisiae ,Dendritic Cell ,Article ,General Biochemistry, Genetics and Molecular Biology ,Immunomodulation ,03 medical and health sciences ,Medical research ,Immune system ,Polysaccharides ,Immunity ,medicine ,Animals ,Lectins, C-Type ,Microbiome ,Homeodomain Proteins ,Animal ,Zymosan ,Dendritic Cells ,General Chemistry ,Th1 Cells ,medicine.disease ,Mice, Inbred C57BL ,030104 developmental biology ,Cyclooxygenase 2 ,Coliti - Abstract
Yeast is an integral part of mammalian microbiome, and like commensal bacteria, has the potential of being harnessed to influence immunity in clinical settings. However, functional specificities of yeast-derived immunoregulatory molecules remain elusive. Here we find that while under steady state, β-1,3-glucan-containing polysaccharides potentiate pro-inflammatory properties, a relatively less abundant class of cell surface polysaccharides, dubbed mannan/β-1,6-glucan-containing polysaccharides (MGCP), is capable of exerting potent anti-inflammatory effects to the immune system. MGCP, in contrast to previously identified microbial cell surface polysaccharides, through a Dectin1-Cox2 signaling axis in dendritic cells, facilitates regulatory T (Treg) cell induction from naïve T cells. Furthermore, through a TLR2-dependent mechanism, it restrains Th1 differentiation of effector T cells by suppressing IFN-γ expression. As a result, administration of MGCP display robust suppressive capacity towards experimental inflammatory disease models of colitis and experimental autoimmune encephalomyelitis (EAE) in mice, thereby highlighting its potential therapeutic utility against clinically relevant autoimmune diseases., Yeast form part of the host microbiome with known impact on host immunity. Here the authors identify and investigate the impact of commensal yeast-derived polysaccharides in modulating host inflammation, and show its potential for inhibiting inflammation in a number of models of inflammatory diseases.
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- 2021
15. Mechanisms of anticancer activity of bacteria in enhancing cancer immunotherapy
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Sin-Hyeog Im, Garima Sharma, Amit Sharma, Inhae Kim, Soo-Woong Lee, Hye-Na Lee, ChangWook Park, and Dipayan Rudra
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Cancer Research ,Oncology - Abstract
e15047 Background: Numerous studies indicate that selective microbiota could enhance anti-tumor immunity with checkpoint inhibitors. However, it is arduous to identify the best candidate bacteria strains and understand their underlying action mechanisms. Methods: We have developed Avatiome platform technology, an innovative pre-clinical model system that mimics the human body's immune system and microbiome. Avatiome incorporates up-to-date technologies such as immunophenotyping, single-cell transcriptomics, and an Artificial Intelligence system to develop novel therapeutics targeting neuronal, systemic inflammatory diseases, and cancers. Results: We have identified Lp IMB19 as an LBP candidate that can enhance anti-cancer immunity through this technology. Lp IMB19 suppresses tumor progression in pre-clinical models of melanoma, renal cancer, and NSCLC. Lp IMB19 efficiently potentiates the therapeutic effect of anti-PD-L1 in murine tumor models by enhancing the effector function of CD8+ T cells via altering the phenotypes of tumor-infiltrating macrophages with inflammatory M1 type. We have identified rhamnose-rich heteropolysaccharides (RHP) as key effector molecules to induce M1 macrophage in a TLR2 dependent manner. Lp IMB19 also limits the amount of iron availability via Lipocalin 2 (LCN2) to capture trace iron from the microenvironment and switch to an iron sequestration phenotype, subsequently inhibiting tumor growth. No side effect or toxicity is observed in pre-clinical toxicity studies. Conclusions: We are currently developing Lp IMB19 as an onco-biotics for clinical investigation as a live biotherapeutic product (LBP) combined with immune checkpoint inhibitors.
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- 2022
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16. Resolving the Mutually Exclusive Immune Responses of Chitosan with Nanomechanics and Immunological Assays
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Suyoung Lee, Seohyun Byun, Changhon Lee, Sun Hee Park, Dipayan Rudra, Yoichiro Iwakura, You Jeong Lee, Sin‐Hyeog Im, and Dong Soo Hwang
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Molecular Weight ,Biomaterials ,Chitosan ,Receptors, Pattern Recognition ,Immunity ,Biomedical Engineering ,Antigen-Presenting Cells ,Pharmaceutical Science - Abstract
Multifaceted functions displayed by both pro- and anti-inflammatory properties of chitosan hinder its effective development as an immunomodulatory agent. Herein, the contributions of the bending stiffness of chitosan with regard to its immune regulatory properties toward inflammation are investigated. The anti-inflammatory properties of chitosan molecular weight (MW) with a shorter (≈1 kDa) or longer (≈15 kDa) than the persistent length (L
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- 2022
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17. The transcription factor Foxp1 preserves integrity of an active Foxp3 locus in extrathymic Treg cells
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Dipayan Rudra, Keunsoo Kang, Sinchita Roy-Chowdhuri, Sayantani Ghosh, and Sin-Hyeog Im
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0301 basic medicine ,Cellular differentiation ,Science ,General Physics and Astronomy ,Gene Expression ,chemical and pharmacologic phenomena ,Biology ,Regulatory Sequences, Nucleic Acid ,DNA-binding protein ,T-Lymphocytes, Regulatory ,General Biochemistry, Genetics and Molecular Biology ,Article ,Histones ,03 medical and health sciences ,Mice ,Forkhead Transcription Factors ,Immune system ,Intestinal mucosa ,Animals ,Intestinal Mucosa ,lcsh:Science ,Transcription factor ,Inflammation ,Multidisciplinary ,FOXP3 ,Cell Differentiation ,hemic and immune systems ,General Chemistry ,FOXP1 ,Colitis ,Neuropilin-1 ,Cell biology ,DNA-Binding Proteins ,Mice, Inbred C57BL ,Repressor Proteins ,030104 developmental biology ,lcsh:Q ,Gene Deletion ,Transcription Factors - Abstract
Regulatory T (Treg) cells, which are broadly classified as thymically derived (tTreg) or extrathymically induced (iTreg), suppress immune responses and display stringent dependence to the transcription factor Foxp3. However precise understanding of molecular events that promote and preserve Foxp3 expression in Treg cells is still evolving. Here we show that Foxp1, a forkhead transcription factor and a sibling family member of Foxp3, is essential for sustaining optimal expression of Foxp3 specifically in iTreg cells. Deletion of Foxp1 renders iTreg cells to gradually lose Foxp3, resulting in dramatically reduced Nrp1−Helios− iTreg compartment as well as augmented intestinal inflammation in aged mice. Our finding underscores a mechanistic module in which evolutionarily related transcription factors establish a molecular program to ensure efficient immune homeostasis. Furthermore, it provides a novel target that can be potentially modulated to exclusively reinforce iTreg stability keeping their thymic counterpart unperturbed., Regulatory T (Treg) cells suppress immune cell activation to maintain immune homeostasis, and have their lineage enforced by the master transcription factor Foxp3. Here the authors show that Foxp3 expression is promoted and maintained by a related family member, Foxp1, specifically in peripherally induced Treg but not in Treg cells of thymic origin.
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- 2018
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18. KLK5 induces shedding of DPP4 from circulatory Th17 cells in type 2 diabetes
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Satinath Mukhopadhyay, Debrup Sen, Amrit Raj Ghosh, Dipyaman Ganguly, Amit Sharma, Dipayan Rudra, Krishna Kumar, Partha Chakrabarti, Titli Nargis, and Saikat Chakrabarti
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Adult ,CD4-Positive T-Lymphocytes ,Male ,0301 basic medicine ,KLK5 ,lcsh:Internal medicine ,medicine.medical_specialty ,endocrine system diseases ,Dipeptidyl Peptidase 4 ,T2DM ,Type 2 diabetes ,DPP4 ,Biology ,Peripheral blood mononuclear cell ,03 medical and health sciences ,Internal medicine ,medicine ,Humans ,Th17 cells ,lcsh:RC31-1245 ,Molecular Biology ,PBMC ,nutritional and metabolic diseases ,Type 2 Diabetes Mellitus ,Cell Biology ,Plasma levels ,Middle Aged ,medicine.disease ,030104 developmental biology ,Endocrinology ,Diabetes Mellitus, Type 2 ,Circulatory system ,Immunology ,Female ,Kallikreins ,Original Article ,Metabolic syndrome - Abstract
Objective Increasing plasma levels and activity of dipeptidyl peptidase-4 (DPP4 or CD26) are associated with rapid progression of metabolic syndrome to overt type 2 diabetes mellitus (T2DM). While DPP4 inhibitors are increasingly used as anti-hyperglycemic agents, the reason for the increase in plasma DPP4 activity in T2DM patients remains elusive. Methods We looked into the source of plasma DPP4 activity in a cohort of 135 treatment naive nonobese (BMI, Graphical abstract Image 1, Highlights • Plasma DPP4 activity is high in T2DM patients. • PBMC and CD4+ T cells shed increased amount of DPP4 in T2DM patients. • KLK5 expression is enhanced in PBMC and CD4+ T cells in T2DM patients. • CD4+ T cell derived KLK5 induces DPP4 shedding in autocrine and paracrine manner. • Th17 cells are important source of plasma DPP4 in T2DM patients.
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- 2017
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19. Bcl11b prevents catastrophic autoimmunity by controlling multiple aspects of a regulatory T cell gene expression program
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Sung-Wook Hong, Sinchita Roy-Chowdhuri, Amit Sharma, Sayantani Ghosh, Sin-Hyeog Im, Dipayan Rudra, Keunsoo Kang, and Syed Nurul Hasan
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CD4-Positive T-Lymphocytes ,Male ,Regulatory T cell ,BCL11B ,Immunology ,Autoimmunity ,chemical and pharmacologic phenomena ,Biology ,T-Lymphocytes, Regulatory ,Immune tolerance ,Transcriptome ,03 medical and health sciences ,0302 clinical medicine ,medicine ,Animals ,Molecular Biology ,Transcription factor ,Research Articles ,030304 developmental biology ,Mice, Knockout ,Regulation of gene expression ,0303 health sciences ,Binding Sites ,Multidisciplinary ,Tumor Suppressor Proteins ,SciAdv r-articles ,FOXP3 ,Forkhead Transcription Factors ,hemic and immune systems ,Colitis ,Cell biology ,Mice, Inbred C57BL ,Repressor Proteins ,Gene expression profiling ,medicine.anatomical_structure ,Gene Expression Regulation ,030220 oncology & carcinogenesis ,Female ,Protein Binding ,Research Article - Abstract
Bcl11b orchestrates a Treg cell transcription program by regulating functional recruitment of the master regulator Foxp3., Foxp3 and its protein partners establish a regulatory T (Treg) cell transcription profile and promote immunological tolerance. However, molecular features contributing to a Treg-specific gene expression program are still incompletely understood. We find that the transcription factor Bcl11b is a prominent Foxp3 cofactor with multifaceted functions in Treg biology. Optimal genomic recruitment of Foxp3 and Bcl11b is critically interdependent. Genome-wide occupancy studies coupled with gene expression profiling reveal that Bcl11b, in association with Foxp3, is primarily responsible in establishing a Treg-specific gene activation program. Furthermore, Bcl11b restricts misdirected recruitment of Foxp3 to sites, which would otherwise result in an altered Treg transcriptome profile. Consequently, Treg-specific ablation of Bcl11b results in marked breakdown of immune tolerance, leading to aggressive systemic autoimmunity. Our study provides previously underappreciated mechanistic insights into molecular events contributing to basic aspects of Treg function. Furthermore, it establishes a therapeutic target with potential implications in autoimmunity and cancer.
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- 2019
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20. Ets1 suppresses atopic dermatitis by suppressing pathogenic T cell responses
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Ho Keun Kwon, Keunsoo Kang, Dipayan Rudra, Choong-Gu Lee, Hye-Ji Kang, Jong Hee Nam, Taemook Kim, Chang-Duk Jun, Young Ho Won, Sun Hee Park, Sin-Hyeog Im, Zee Yong Park, and Young Ho Kim
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0301 basic medicine ,Allergy ,T cell ,T-Lymphocytes ,Cell ,Inflammation ,Adaptive Immunity ,CD8-Positive T-Lymphocytes ,Dermatitis, Atopic ,Pathogenesis ,Proto-Oncogene Protein c-ets-1 ,03 medical and health sciences ,Mice ,0302 clinical medicine ,Immune system ,Th2 Cells ,medicine ,Cytokine Receptor gp130 ,Animals ,Humans ,Skin ,Mice, Knockout ,business.industry ,Interleukin-6 ,General Medicine ,Atopic dermatitis ,Acquired immune system ,medicine.disease ,Disease Models, Animal ,030104 developmental biology ,medicine.anatomical_structure ,030220 oncology & carcinogenesis ,Immunology ,Th17 Cells ,medicine.symptom ,business ,Research Article - Abstract
Atopic dermatitis (AD) is a complex inflammatory skin disease mediated by immune cells of both adaptive and innate types. Among them, CD4(+) Th cells are one of major players of AD pathogenesis. Although the pathogenic role of Th2 cells has been well characterized, Th17/Th22 cells are also implicated in the pathogenesis of AD. However, the molecular mechanisms underlying pathogenic immune responses in AD remain unclear. We sought to investigate how the defect in the AD susceptibility gene, Ets1, is involved in AD pathogenesis in human and mice and its clinical relevance in disease severity by identifying Ets1 target genes and binding partners. Consistent with the decrease in ETS1 levels in severe AD patients and the experimental AD-like skin inflammation model, T cell–specific Ets1-deficient mice (Ets1(ΔdLck)) developed severe AD-like symptoms with increased pathogenic Th cell responses. A T cell–intrinsic increase of gp130 expression upon Ets1 deficiency promotes the gp130-mediated IL-6 signaling pathway, thereby leading to the development of severe AD-like symptoms. Functional blocking of gp130 by selective inhibitor SC144 ameliorated the disease pathogenesis by reducing pathogenic Th cell responses. Our results reveal a protective role of Ets1 in restricting pathogenic Th cell responses and suggest a potential therapeutic target for AD treatment.
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- 2019
21. The Transcription Factor Ets1 Suppresses T Follicular Helper Type 2 Cell Differentiation to Halt the Onset of Systemic Lupus Erythematosus
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Choong-Gu Lee, Hye-Ji Kang, Gi-Cheon Kim, Sung-Min Hwang, Sin-Hyeog Im, Ju-Yang Jung, Syed Nurul Hasan, Chang-Hee Suh, Changhon Lee, Ambarnil Ghosh, Chan Johng Kim, and Dipayan Rudra
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CD4-Positive T-Lymphocytes ,0301 basic medicine ,Cell type ,Cellular differentiation ,Immunology ,Cell ,Gene Expression ,Autoimmunity ,Mice, Transgenic ,Biology ,medicine.disease_cause ,Proto-Oncogene Protein c-ets-1 ,03 medical and health sciences ,Th2 Cells ,0302 clinical medicine ,Immune system ,immune system diseases ,medicine ,Animals ,Humans ,Lupus Erythematosus, Systemic ,Immunology and Allergy ,skin and connective tissue diseases ,Interleukin 4 ,Cell Proliferation ,Mice, Knockout ,B-Lymphocytes ,Gene Expression Profiling ,Cell Differentiation ,BCL6 ,Mice, Inbred C57BL ,030104 developmental biology ,Infectious Diseases ,medicine.anatomical_structure ,Immunoglobulin class switching ,030215 immunology - Abstract
Summary Single-nucleotide polymorphisms in ETS1 are associated with systemic lupus erythematosus (SLE). Ets1−/− mice develop SLE-like symptoms, suggesting that dysregulation of this transcription factor is important to the onset or progression of SLE. We used conditional deletion approaches to examine the impact of Ets1 expression in different immune cell types. Ets1 deletion on CD4+ T cells, but not B cells or dendritic cells, resulted in the SLE autoimmunity, and this was associated with the spontaneous expansion of T follicular helper type 2 (Tfh2) cells. Ets1−/− Tfh2 cells exhibited increased expression of GATA-3 and interleukin-4 (IL-4), which induced IgE isotype switching in B cells. Neutralization of IL-4 reduced Tfh2 cell frequencies and ameliorated disease parameters. Mechanistically, Ets1 suppressed signature Tfh and Th2 cell genes, including Cxcr5, Bcl6, and Il4ra, thus curbing the terminal Tfh2 cell differentiation process. Tfh2 cell frequencies in SLE patients correlated with disease parameters, providing evidence for the relevance of these findings to human disease.
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- 2019
22. Upregulation of Ets1 expression by NFATc2 and NFKB1/RELA promotes breast cancer cell invasiveness
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Keunsoo Kang, Taemook Kim, Gi-Cheon Kim, Young Ho Kim, Jong Hee Nam, Sin-Hyeog Im, Choong-Gu Lee, Dipayan Rudra, Ravi Verma, and Ho Keun Kwon
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0301 basic medicine ,Cancer Research ,NFATC2 ,Promoter ,Biology ,medicine.disease ,lcsh:Neoplasms. Tumors. Oncology. Including cancer and carcinogens ,Metastatic breast cancer ,lcsh:RC254-282 ,Article ,Chromatin ,03 medical and health sciences ,030104 developmental biology ,0302 clinical medicine ,Breast cancer ,ETS1 ,030220 oncology & carcinogenesis ,Gene expression ,Cancer cell ,medicine ,Cancer research ,Molecular Biology - Abstract
Breast cancer is highly aggressive and is the leading cause of cancer-related mortality in women in developed countries. The ETS proto-oncogene 1 (Ets1) has versatile roles during the cellular processes of cancer development. It is often highly expressed in breast cancers and mediates migration and invasion of human breast cancer cells. However, underlying mechanisms of Ets1 gene expression is still ambiguous. Here, we identified a core-regulatory element (CRE) located in the Ets1 promoter region (−540/−80 bp from TSS) that contains elements responsible for associating with NFATs and NF-κBs. Compared with the less metastatic breast cancer cells, metastatic breast cancer cells (MDA-MB-231) show open chromatin configurations in the CRE, which facilitates direct binding of NFATc2 and/or NFKB1/RELA complex to trans-activate Ets1 transcription. Moreover, enhanced level of Nfatc2 and Nfkb1 positively correlated with Ets1 expression in the human breast cancer specimens. Deletion of the CRE region by CRISPR/Cas9 system resulted in significant reduction in Ets1 expression, which led to alterations of Ets1-mediated transcription programs including tumor invasiveness-related genes. Proper regulation of Ets1 gene expression by targeting the NFATc2 and NFKB1/RELA interaction could be a potential therapeutic target for Ets1-mediated metastatic breast cancer.
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- 2018
23. Cell surface polysaccharides of
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Ravi, Verma, Changhon, Lee, Eun-Ji, Jeun, Jaeu, Yi, Kwang Soon, Kim, Ambarnil, Ghosh, Seohyun, Byun, Choong-Gu, Lee, Hye-Ji, Kang, Gi-Cheon, Kim, Chang-Duk, Jun, Gwenaël, Jan, Chang-Hee, Suh, Ju-Yang, Jung, Jonathan, Sprent, Dipayan, Rudra, Cristina, De Castro, Antonio, Molinaro, Charles D, Surh, and Sin-Hyeog, Im
- Subjects
Inflammation ,Mice, Inbred C57BL ,Mice, Knockout ,Mice ,Polysaccharides ,Animals ,Forkhead Transcription Factors ,Bifidobacterium bifidum ,T-Lymphocytes, Regulatory - Abstract
Dysregulation of intestinal microflora is linked to inflammatory disorders associated with compromised immunosuppressive functions of Foxp3
- Published
- 2018
24. Cell surface polysaccharides of Bifidobacterium bifidum induce the generation of Foxp3+ regulatory T cells
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Sin-Hyeog Im, Jonathan Sprent, Eun-Ji Jeun, Gwenaël Jan, Seohyun Byun, Hye-Ji Kang, Chang-Duk Jun, Kwang Soon Kim, Ju-Yang Jung, Jaeu Yi, Chang-Hee Suh, Charles D. Surh, Antonio Molinaro, Changhon Lee, Choong-Gu Lee, Gi-Cheon Kim, Cristina De Castro, Dipayan Rudra, Ambarnil Ghosh, Ravi Verma, Academy of Immunology and Microbiology, Institute for Basic Science, Division of Integrative Biosciences and Biotechnology, Department of Life Sciences, Pohang University of Science and Technology (POSTECH), School of Life Sciences, University of Nantong, Science et Technologie du Lait et de l'Oeuf (STLO), Institut National de la Recherche Agronomique (INRA)-AGROCAMPUS OUEST, Department of Rheumatology, Ajou University School of Medicine, Immunology Research Program, Garvan Institute of Medical Research, Department of Agricultural Sciences, University of Naples Federico II, Task Force on Microbiome Studies, Department of Chemical Sciences, Università degli studi di Catania [Catania], Verma, Ravi, Lee, Changhon, Jeun, Eun-Ji, Yi, Jaeu, Kim, Kwang Soon, Ghosh, Ambarnil, Byun, Seohyun, Lee, Choong-Gu, Kang, Hye-Ji, Kim, Gi-Cheon, Jun, Chang-Duk, Jan, Gwenaël, Suh, Chang-Hee, Jung, Ju-Yang, Sprent, Jonathan, Rudra, Dipayan, De Castro, Cristina, Molinaro, Antonio, Surh, Charles D., Im, Sin-Hyeog, and Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)
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0301 basic medicine ,surface cellulaire ,Immunology ,ved/biology.organism_classification_rank.species ,Cell ,chemical and pharmacologic phenomena ,microbiote digestif ,bactérie probiotique ,Polysaccharide ,human health ,immunomodulation ,03 medical and health sciences ,chemistry.chemical_compound ,0302 clinical medicine ,microbiote ,intestin ,medicine ,Food and Nutrition ,Receptor ,bifidobacterium bifidum ,polysaccharide ,inflammation de l'intestin ,chemistry.chemical_classification ,Bifidobacterium bifidum ,biology ,ved/biology ,Effector ,Microbiology and Parasitology ,FOXP3 ,hemic and immune systems ,General Medicine ,santé humaine ,Galactan ,biology.organism_classification ,Medicine (all), carbohydrates, microbiome ,Microbiologie et Parasitologie ,Cell biology ,030104 developmental biology ,medicine.anatomical_structure ,cell surface ,[SDV.MP]Life Sciences [q-bio]/Microbiology and Parasitology ,chemistry ,Alimentation et Nutrition ,[SDV.AEN]Life Sciences [q-bio]/Food and Nutrition ,Bacteria ,030215 immunology - Abstract
Dysregulation of intestinal microflora is linked to inflammatory disorders associated with compromised immunosuppressive functions of Foxp3+ T regulatory (Treg) cells. Although mucosa-associated commensal microbiota has been implicated in Treg generation, molecular identities of the “effector” components controlling this process remain largely unknown. Here, we have defined Bifidobacterium bifidum as a potent inducer of Foxp3+ Treg cells with diverse T cell receptor specificity to dietary antigens, commensal bacteria, and B. bifidum itself. Cell surface β-glucan/galactan (CSGG) polysaccharides of B. bifidum were identified as key components responsible for Treg induction. CSGG efficiently recapitulated the activity of whole bacteria and acted via regulatory dendritic cells through a partially Toll-like receptor 2–mediated mechanism. Treg cells induced by B. bifidum or purified CSGG display stable and robust suppressive capacity toward experimental colitis. By identifying CSGG as a functional component of Treg-inducing bacteria, our studies highlight the immunomodulatory potential of CSGG and CSGG-producing microbes.
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- 2018
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25. Lactobacillus helveticus suppresses experimental rheumatoid arthritis by reducing inflammatory T cell responses
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Chang-Duk Jun, Sung-Gyoo Park, Sin-Hyeog Im, Young Ho Kim, Ji-Sun Hwang, Gi-Cheon Kim, Sung-Min Hwang, Dipayan Rudra, Young-Tae Ahn, Jung-Eun Kim, Won Sup Hwang, and Chang-Suk Chae
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medicine.medical_treatment ,T cell ,Immune modulation ,Medicine (miscellaneous) ,Inflammation ,law.invention ,Probiotic ,Immune system ,law ,medicine ,TX341-641 ,Rheumatoid arthritis ,Cytokine ,Nutrition and Dietetics ,Lactobacillus helveticus ,biology ,Nutrition. Foods and food supply ,business.industry ,Probiotics ,biology.organism_classification ,medicine.disease ,medicine.anatomical_structure ,Immunology ,medicine.symptom ,business ,Ex vivo ,Food Science - Abstract
Although probiotics could confer health benefits to host physiology, their efficacy is strain specific. To identify anti-inflammatory probiotics, an ex vivo screening system was developed, and validated effector functions of selected candidates using experimental rheumatoid arthritis as an in vivo model. Lactobacillus helveticus HY7801 was selected as the best candidate. Oral administration of L. helveticus HY7801 prevented the development of collagen-induced experimental arthritis, and diminished disease progression and severity by reducing antigen specific IgG levels and inflammatory immune response. Administration of L. helveticus HY7801 may induce regulatory CD11c+ dendritic cells, which in turn induce a phenotypic alteration of immune cells by reducing pro-inflammatory cytokines (TNF-α, IFN-γ, and IL-17A) while enhancing anti-inflammatory cytokine (IL-10) by CD4+ T cells. This study suggests that screening of probiotic strains based on the IL-10highIL-12low selection criterion may be applicable to identify anti-inflammatory probiotics as an efficacious food for treating inflammatory immune responses including rheumatoid arthritis.
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- 2015
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26. NFAT1 and JunB Cooperatively Regulate IL-31 Gene Expression in CD4+ T Cells in Health and Disease
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Ji Sun Hwang, Won Sup Hwang, Hui Sun Wang, Changhon Lee, Sung-Min Hwang, Sin-Hyeog Im, Chang-Suk Chae, Gi-Cheon Kim, Eunbee Park, Jung-Eun Kim, Chang-Duk Jun, and Dipayan Rudra
- Subjects
CD4-Positive T-Lymphocytes ,Chromatin Immunoprecipitation ,JUNB ,Immunology ,Biology ,Real-Time Polymerase Chain Reaction ,Transfection ,Dermatitis, Atopic ,Mice ,Interleukin 21 ,Immune system ,Cyclosporin a ,Gene expression ,Animals ,Immunology and Allergy ,RNA, Small Interfering ,Regulation of gene expression ,Mice, Inbred BALB C ,Gene knockdown ,NFATC Transcription Factors ,Interleukins ,T-cell receptor ,Immunohistochemistry ,Molecular biology ,Mice, Inbred C57BL ,Disease Models, Animal ,Gene Expression Regulation ,Mutagenesis, Site-Directed ,Female ,Transcriptome ,Transcription Factors - Abstract
IL-31 is a key mediator of itching in atopic dermatitis (AD) and is preferentially produced by activated CD4+ T cells and Th2 cells. Although pathophysiological functions of IL-31 have been suggested in diverse immune disorders, the molecular events underlying IL-31 gene regulation are still unclear. In this study we identified the transcription start site and functional promoter involved in IL-31 gene regulation in mouse CD4+ T cells. TCR stimulation–dependent IL-31 expression was found to be closely linked with in vivo binding of NFAT1 and JunB to the IL-31 promoter. Although NFAT1 alone enhanced IL-31 promoter activity, it was further enhanced in the presence of JunB. Conversely, knockdown of either NFAT1 or JunB resulted in reduced IL-31 expression. NFAT1-deficient CD4+ T cells showed a significant defect in IL-31 expression compared with wild-type CD4+ T cells. In agreement with these findings, mice subjected to atopic conditions showed much higher levels of IL-31, which were closely correlated with a significant increase in the number of infiltrated NFAT1+CD4+ T cells into the AD ears. Amelioration of AD progression by cyclosporin A treatment was well correlated with downregulation of IL-31 expressions in CD4+ T cells and total ear residual cells. In summary, our results suggest a functional cooperation between NFAT1 and JunB in mediating IL-31 gene expression in CD4+ T cells and indicate that interference with this interaction or their activity has the potential of reducing IL-31–mediated AD symptoms.
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- 2015
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27. Locus-Specific Reversible DNA Methylation Regulates Transient IL-10 Expression in Th1 Cells
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Ravi Verma, Zee Yong Park, Choong-Gu Lee, Sin-Hyeog Im, Changhon Lee, Won Sup Hwang, and Dipayan Rudra
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0301 basic medicine ,CD4-Positive T-Lymphocytes ,STAT3 Transcription Factor ,Interleukin-27 ,Immunology ,Cell Line ,Epigenesis, Genetic ,03 medical and health sciences ,Mice ,0302 clinical medicine ,Th2 Cells ,Gene expression ,Immunology and Allergy ,Animals ,Humans ,Epigenetics ,Promoter Regions, Genetic ,Mice, Knockout ,Chemistry ,HEK 293 cells ,Methylation ,DNA Methylation ,Th1 Cells ,Molecular biology ,Interleukin-10 ,Mice, Inbred C57BL ,030104 developmental biology ,DNA demethylation ,HEK293 Cells ,CpG site ,Cell culture ,DNA methylation ,CpG Islands ,030215 immunology - Abstract
IL-10 is a pleiotropic cytokine with multifaceted functions in establishing immune homeostasis. Although expressed by Th1 and Th2 cells, conventional Th1 cells produce marginal levels of IL-10 compared with their Th2 counterparts. In this study, we investigated the epigenetic mechanisms of Il-10 gene expression in Th1 cells. Bioinformatics EMBOSS CpG plot analysis and bisulfite pyrosequencing revealed three CpG DNA methylation sites in the Il-10 gene locus. Progressive DNA methylation at all of the CpG regions of interest (ROIs) established a repressive program of Il-10 gene expression in Th1 cells. Interestingly, Th1 cells treated with IL-12 and IL-27 cytokines, thereby mimicking a chronic inflammatory condition in vivo, displayed a significant increase in IL-10 production that was accompanied by selective DNA demethylation at ROI 3 located in intron 3. IL-10–producing T cells isolated from lymphocytic choriomeningitis virus–infected mice also showed enhanced DNA demethylation at ROI 3. Binding of STAT1 and STAT3 to demethylated ROI 3 enhanced IL-10 expression in an IL-12/IL-27–dependent manner. Accordingly, CD4+ T cells isolated from STAT1- or STAT3-knockout mice were significantly defective in IL-10 production. Our data suggest that, although stably maintained DNA methylation at the promoter may repress IL-10 expression in Th1 cells, locus-specific reversible DNA demethylation may serve as a threshold platform to control transient Il-10 gene expression.
- Published
- 2017
28. Transient regulatory T cell ablation deters oncogene-driven breast cancer and enhances radiotherapy
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Dipayan Rudra, George Plitas, Sue Y. Lee, Paula D. Bos, and Alexander Y. Rudensky
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CD4-Positive T-Lymphocytes ,Lung Neoplasms ,Cell cycle checkpoint ,Regulatory T cell ,medicine.medical_treatment ,Immunology ,Mammary Neoplasms, Animal ,chemical and pharmacologic phenomena ,CD8-Positive T-Lymphocytes ,Biology ,medicine.disease_cause ,T-Lymphocytes, Regulatory ,Article ,Lymphocyte Depletion ,Interferon-gamma ,Mice ,03 medical and health sciences ,0302 clinical medicine ,Immune system ,Radiation, Ionizing ,Tumor Microenvironment ,medicine ,Animals ,Immunology and Allergy ,Cell Proliferation ,030304 developmental biology ,0303 health sciences ,Tumor microenvironment ,Cell Death ,Cell growth ,hemic and immune systems ,Cell Cycle Checkpoints ,Oncogenes ,Immunotherapy ,Tumor Burden ,3. Good health ,Killer Cells, Natural ,medicine.anatomical_structure ,030220 oncology & carcinogenesis ,Disease Progression ,Cancer research ,Female ,Carcinogenesis ,CD8 - Abstract
Transient ablation of regulatory T cells in a murine model of breast carcinogenesis inhibits primary tumor and lung metastatic growth and enhances the therapeutic effect of radiotherapy, but not immune checkpoint blockade., Rational combinatorial therapeutic strategies have proven beneficial for the management of cancer. Recent success of checkpoint blockade in highly immunogenic tumors has renewed interest in immunotherapy. Regulatory T (T reg) cells densely populate solid tumors, which may promote progression through suppressing anti-tumor immune responses. We investigated the role of T reg cells in murine mammary carcinogenesis using an orthotopic, polyoma middle-T antigen-driven model in Foxp3DTR knockin mice. T reg cell ablation resulted in significant determent of primary and metastatic tumor progression. Importantly, short-term ablation of T reg cells in advanced spontaneous tumors led to extensive apoptotic tumor cell death. This anti-tumor activity was dependent on IFN-γ and CD4+ T cells but not on NK or CD8+ T cells. Combination of T reg cell ablation with CTLA-4 or PD-1/PD-L1 blockade did not affect tumor growth or improve the therapeutic effect attained by T reg cell ablation alone. However, T reg cell targeting jointly with tumor irradiation significantly reduced tumor burden and improved overall survival. Together, our results demonstrate a major tumor-promoting role of T reg cells in an autochthonous model of tumorigenesis, and they reveal the potential therapeutic value of combining transient T reg cell ablation with radiotherapy for the management of poorly immunogenic, aggressive malignancies.
- Published
- 2013
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29. A CURIous Case of Molecular Kidnapping
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Dipayan Rudra and Jonathan R. Warner
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0301 basic medicine ,Ribosomal Proteins ,RNA ,Cell Biology ,Computational biology ,Ribosomal RNA ,Biology ,Molecular biology ,Ribosome assembly ,03 medical and health sciences ,030104 developmental biology ,Ribosomal protein ,RNA, Ribosomal ,Crime ,Molecular Biology ,Transcription factor ,Ribosomes - Abstract
In this issue of Molecular Cell, Albert et al. (2016) demonstrate how the production of rRNA and ribosomal proteins is coordinated through a two-step response to stress that requires cross-talk between a dedicated transcription factor and a ribosome assembly factor.
- Published
- 2016
30. Transcription factor NFAT1 controls allergic contact hypersensitivitythrough regulation of activation induced cell death program
- Author
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Ho Keun Kwon, Sin-Hyeog Im, Ji Sun Hwang, Jong Hee Nam, Charles D. Surh, Young Ho Kim, Dipayan Rudra, Chang-Suk Chae, Gi-Cheon Kim, and Chang-Duk Jun
- Subjects
0301 basic medicine ,T cell ,Apoptosis ,Inflammation ,Dermatitis, Contact ,Lymphocyte Activation ,T-Lymphocytes, Regulatory ,Article ,Immunomodulation ,Mice ,03 medical and health sciences ,Interleukin 21 ,0302 clinical medicine ,T-Lymphocyte Subsets ,Immune Tolerance ,medicine ,Animals ,Cytotoxic T cell ,Transcription factor ,Mice, Knockout ,Multidisciplinary ,Cell Death ,NFATC Transcription Factors ,integumentary system ,business.industry ,Molecular biology ,Disease Models, Animal ,030104 developmental biology ,medicine.anatomical_structure ,Gene Expression Regulation ,Dermatitis, Allergic Contact ,Immunology ,Ectopic expression ,medicine.symptom ,business ,CD8 ,030215 immunology - Abstract
Allergic contact hypersensitivity (CHS) is an inflammatory skin disease mediated by allergen specific T cells. In this study, we investigated the role of transcription factor NFAT1 in the pathogenesis of contact hypersensitivity. NFAT1 knock out (KO) mice spontaneously developed CHS-like skin inflammation in old age. Healthy young NFAT1 KO mice displayed enhanced susceptibility to hapten-induced CHS. Both CD4+ and CD8+ T cells from NFAT1 KO mice displayed hyper-activated properties and produced significantly enhanced levels of inflammatory T helper 1(Th1)/Th17 type cytokines. NFAT1 KO T cells were more resistant to activation induced cell death (AICD) and regulatory T cells derived from these mice showed a partial defect in their suppressor activity. NFAT1 KO T cells displayed a reduced expression of apoptosis associated BCL-2/BH3 family members. Ectopic expression of NFAT1 restored the AICD defect in NFAT1 KO T cells and increased AICD in normal T cells. Recipient Rag2−/− mice transferred with NFAT1 KO T cells showed more severe CHS sensitivity due to a defect in activation induced hapten-reactive T cell apoptosis. Collectively, our results suggest the NFAT1 plays a pivotal role as a genetic switch in CD4+/CD8+ T cell tolerance by regulating AICD process in the T cell mediated skin inflammation.
- Published
- 2016
31. Transcription factor Foxp3 and its protein partners form a complex regulatory network
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Aaron Arvey, Paul deRoos, Ashutosh Chaudhry, Robert M. Samstein, Rachel E. Niec, Christina S. Leslie, Alexander Y. Rudensky, Dipayan Rudra, David R. Goodlett, and Scott A. Shaffer
- Subjects
Proteomics ,Cellular differentiation ,Immunology ,Gene regulatory network ,Mice, Transgenic ,chemical and pharmacologic phenomena ,GATA3 Transcription Factor ,Biology ,T-Lymphocytes, Regulatory ,Article ,Mice ,03 medical and health sciences ,0302 clinical medicine ,Transcription (biology) ,Gene expression ,Transcriptional regulation ,Animals ,Humans ,Immunology and Allergy ,Gene Regulatory Networks ,Transcription factor ,030304 developmental biology ,Genetics ,Regulation of gene expression ,0303 health sciences ,FOXP3 ,Cell Differentiation ,Forkhead Transcription Factors ,hemic and immune systems ,Protein Structure, Tertiary ,Gene Expression Regulation ,030215 immunology - Abstract
The transcription factor Foxp3 is indispensible for the differentiation and function of regulatory T cells (T(reg) cells). To gain insights into the molecular mechanisms of Foxp3-mediated gene expression, we purified Foxp3 complexes and explored their composition. Biochemical and mass-spectrometric analyses revealed that Foxp3 forms multiprotein complexes of 400-800 kDa or larger and identified 361 associated proteins, ∼30% of which were transcription related. Foxp3 directly regulated expression of a large proportion of the genes encoding its cofactors. Some transcription factor partners of Foxp3 facilitated its expression. Functional analysis of the cooperation of Foxp3 with one such partner, GATA-3, provided additional evidence for a network of transcriptional regulation afforded by Foxp3 and its associates to control distinct aspects of T(reg) cell biology.
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- 2012
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32. Fine-Structure Analysis of Ribosomal Protein Gene Transcription
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Kerri B. McIntosh, Yu Zhao, Jonathan R. Warner, David Shore, Dipayan Rudra, and Stephan B. Schawalder
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Ribosomal Proteins ,Saccharomyces cerevisiae Proteins ,Transcription, Genetic ,Recombinant Fusion Proteins ,Telomere-Binding Proteins ,Response element ,RNA polymerase II ,Saccharomyces cerevisiae ,Biology ,Shelterin Complex ,Bacterial Proteins ,Ribosomal protein ,Gene Expression Regulation, Fungal ,Promoter Regions, Genetic ,Molecular Biology ,Transcription factor ,Sirolimus ,Genetics ,General transcription factor ,Serine Endopeptidases ,Forkhead Transcription Factors ,Promoter ,Articles ,Cell Biology ,enzymes and coenzymes (carbohydrates) ,TAF4 ,TAF2 ,Trans-Activators ,biology.protein ,Transcription Factors - Abstract
The ribosomal protein genes of Saccharomyces cerevisiae, responsible for nearly 40% of the polymerase II transcription initiation events, are characterized by the constitutive tight binding of the transcription factor Rap1. Rap1 binds at many places in the yeast genome, including glycolytic enzyme genes, the silent MAT loci, and telomeres, its specificity arising from specific cofactors recruited at the appropriate genes. At the ribosomal protein genes two such cofactors have recently been identified as Fhl1 and Ifh1. We have now characterized the interaction of these factors at a bidirectional ribosomal protein promoter by replacing the Rap1 sites with LexA operator sites. LexA-Gal4(AD) drives active transcription at this modified promoter, although not always at the correct initiation site. Tethering Rap1 to the promoter neither drives transcription nor recruits Fhl1 or Ifh1, showing that Rap1 function requires direct DNA binding. Tethering Fhl1 also fails to activate transcription, even though it does recruit Ifh1, suggesting that Fhl1 does more than simply provide a platform for Ifh1. Tethering Ifh1 to the promoter leads to low-level transcription, at the correct initiation sites. Remarkably, activation by tethered LexA-Gal4(AD) is strongly reduced when TOR kinase is inhibited by rapamycin. Thus, TOR can act independently of Fhl1/Ifh1 at ribosomal protein promoters. We also show that, in our strain background, the response of ribosomal protein promoters to TOR inhibition is independent of the Ifh1-related protein Crf1, indicating that the role of this corepressor is strain specific. Fine-structure chromatin mapping of several ribosomal protein promoters revealed that histones are essentially absent from the Rap1 sites, while Fhl1 and Ifh1 are coincident with each other but distinct from Rap1.
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- 2006
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33. What better measure than ribosome synthesis?: Figure 1
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Jonathan R. Warner and Dipayan Rudra
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Zygote ,Cell division ,Cell growth ,Cell ,Biology ,Cell cycle ,Ribosome ,Cell biology ,medicine.anatomical_structure ,Genetics ,medicine ,Gene ,Developmental Biology ,Cyclin - Abstract
Cells grow; cells divide. Some cells grow without dividing: neurons, or oocytes. Some cells divide without growing: developing zygotes. For most cells, however, growth and division are coupled, thereby maintaining cell size within narrow limits. The basis of this coupling has been elusive. Cell growth was the subject of some of the earliest molecular biological investigations when it was shown that, on a variety of media, the ribosome content of Escherichia coli was proportional to the growth rate (Maaloe and Kjeldgaard 1966). Soon thereafter, the study of growth was overshadowed by the study of gene expression with its emphasis on the regulated transcription of individual genes. More recently, the recognition that growth and cell division are so closely intertwined has led to new interest in the study of growth per se, as suggested by the recent publication of two reviews (Kozma and Thomas 2002; Saucedo and Edgar 2002) and a monograph, Cell Growth: Control of Cell Size (Hall et al. 2004). In considering cell growth and division, two points are paramount: (1) Cell growth requires the synthesis of proteins; the synthesis of proteins requires ribosomes. Thus, ultimately the control of cell growth must involve the control of ribosome synthesis. (2) A cell must somehow match the replication of its genome, with the implicit decision to divide, to its size, or perhaps to its predicted size at the time division will occur. These two aspects have often been considered in parallel, the studies of macromolecular synthesis, transcription, and translation proceeding with little care for their implications for cell division, and the studies of the intricate dance of cyclins that powers the cell cycle relatively unconcerned with the macromolecular events within the cell that ultimately drive the decision to divide. Those involved in the cell cycle, however, have been more attentive, if no more successful at understanding the mechanisms controlling the relationship between growth and division. Thus, the dean of the cell cycle field recently wrote, “The existence of a ‘size control’ is well known ... but it has been remarkably resistant to molecular analysis. ... It is a vital link coordinating cell growth with periodic events of the cycle.” (Mitchison 2003).
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- 2004
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34. CD4+ regulatory T cells control TH17 responses in a Stat3-dependent manner
- Author
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Arnold Kas, Alexander Y. Rudensky, Yuqiong Liang, Piper M. Treuting, Robert M. Samstein, Dipayan Rudra, and Ashutosh Chaudhry
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Male ,Receptors, CCR6 ,STAT3 Transcription Factor ,Regulatory T cell ,chemical and pharmacologic phenomena ,Biology ,medicine.disease_cause ,Lymphocyte Activation ,T-Lymphocytes, Regulatory ,Article ,Autoimmunity ,Interferon-gamma ,Mice ,Immune system ,Immunity ,T-Lymphocyte Subsets ,medicine ,Animals ,Cell Lineage ,Intestine, Large ,Phosphorylation ,STAT3 ,Transcription factor ,Multidisciplinary ,Innate immune system ,Interleukin-17 ,hemic and immune systems ,Forkhead Transcription Factors ,T helper cell ,T-Lymphocytes, Helper-Inducer ,Inflammatory Bowel Diseases ,Mice, Inbred C57BL ,medicine.anatomical_structure ,Immunology ,biology.protein ,Cytokines ,Female ,Lymph Nodes ,Spleen - Abstract
Outfoxing Immune Excess Immune responses are kept in check by Foxp3-expressing CD4 + -regulatory T cells (T regs ) through a variety of mechanisms. Expression of specific transcription factors directs T reg responses into distinct T helper cell lineages; however, the transcription factors that regulate particular helper lineages have not been completely characterized. Chaudhry et al. (p. 986 , published online 1 October) show that the transcription factor Stat3, that is required for the initial differentiation of T H 17-effector T cells, is also required for T reg cell-mediated suppression of T H 17-mediated immune responses. Mice carrying a T reg cellspecific deletion in Stat3 succumb to an intestinal inflammatory disease driven by uncontrolled T H 17 responses. Thus, different classes of immune responses can result from the expression of helper lineage–specific transcription factors.
- Published
- 2009
35. Runx-CBFbeta complexes control expression of the transcription factor Foxp3 in regulatory T cells
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Takeshi Egawa, Alexander Y. Rudensky, Mark M.W. Chong, Dipayan Rudra, Piper R. Treuting, and Dan R. Littman
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Male ,Adoptive cell transfer ,Core Binding Factor beta Subunit ,Immunology ,chemical and pharmacologic phenomena ,Thymus Gland ,Biology ,T-Lymphocytes, Regulatory ,Article ,law.invention ,Mice ,immune system diseases ,law ,hemic and lymphatic diseases ,Immunology and Allergy ,Animals ,Cell Lineage ,Transcription factor ,Bone Marrow Transplantation ,Regulation of gene expression ,Messenger RNA ,Gene targeting ,FOXP3 ,hemic and immune systems ,Forkhead Transcription Factors ,Molecular biology ,Adoptive Transfer ,Lymphoproliferative Disorders ,Mice, Inbred C57BL ,Gene Expression Regulation ,Gene Targeting ,Suppressor ,Female ,Lymph Nodes ,Spleen - Abstract
The transcription factor Foxp3 has an indispensable role in establishing stable transcriptional and functional programs of regulatory T cells (T(reg) cells). Loss of Foxp3 expression in mature T(reg) cells results in a failure of suppressor function, yet the molecular mechanisms that ensure steady, heritable Foxp3 expression in the T(reg) cell lineage remain unknown. Using T(reg) cell-specific gene targeting, we found that complexes of the transcription factors Runx and CBFbeta were required for maintenance of Foxp3 mRNA and protein expression in T(reg) cells. Consequently, mice lacking CBFbetab exclusively in the T(reg) cell lineage had a moderate lymphoproliferative syndrome. Thus, Runx-CBFbeta complexes maintain stable high expression of Foxp3 and serve as an essential determinant of T(reg) cell lineage stability.
- Published
- 2009
36. Potential interface between ribosomal protein production and pre-rRNA processing
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Yu Zhao, Jaideep Mallick, Jonathan R. Warner, and Dipayan Rudra
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Ribosomal Proteins ,Saccharomyces cerevisiae Proteins ,Transcription, Genetic ,CURI complex ,RNA polymerase II ,Saccharomyces cerevisiae ,Models, Biological ,RNA Precursors ,Phosphorylation ,RNA Processing, Post-Transcriptional ,Casein Kinase II ,Molecular Biology ,Genetics ,biology ,General transcription factor ,Cell Biology ,Articles ,Cell biology ,Molecular Weight ,Multiprotein Complexes ,Transcription preinitiation complex ,biology.protein ,Thermodynamics ,Transcription factor II F ,Transcription factor II E ,Transcription factor II D ,Transcription factor II A ,Protein Binding - Abstract
It has become clear that in Saccharomyces cerevisiae the transcription of ribosomal protein genes, which makes up a major proportion of the total transcription by RNA polymerase II, is controlled by the interaction of three transcription factors, Rap1, Fhl1, and Ifh1. Of these, only Rap1 binds directly to DNA and only Ifh1 is absent when transcription is repressed. We have examined further the nature of this interaction and find that Ifh1 is actually associated with at least two complexes. In addition to its association with Rap1 and Fhl1, Ifh1 forms a complex (CURI) with casein kinase 2 (CK2), Utp22, and Rrp7. Fhl1 is loosely associated with the CURI complex; its absence partially destabilizes the complex. The CK2 within the complex phosphorylates Ifh1 in vitro but no other members of the complex. Two major components of this complex, Utp22 and Rrp7, are essential participants in the processing of pre-rRNA. Depletion of either protein, but not of other proteins in the early processing steps, brings about a substantial increase in ribosomal protein mRNA. We propose a model in which the CURI complex is a key mediator between the two parallel pathways necessary for ribosome synthesis: the transcription and processing of pre-rRNA and the transcription of ribosomal protein genes.
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- 2007
37. What better measure than ribosome synthesis?
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Dipayan, Rudra and Jonathan R, Warner
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Ribosomal Proteins ,Apoptosis ,Cell Enlargement ,Ribosomes ,Cell Proliferation - Published
- 2004
38. An N-Terminal Mutation of the Foxp3 Transcription Factor Alleviates Arthritis but Exacerbates Diabetes
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Li Li, Daniela Cipolletta, Christophe Benoist, Junko Nishio, Alexander Y. Rudensky, Diane Mathis, Jaime Darce, and Dipayan Rudra
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Cellular differentiation ,Immunology ,Arthritis ,chemical and pharmacologic phenomena ,Nod ,Biology ,medicine.disease_cause ,T-Lymphocytes, Regulatory ,Article ,Autoimmune Diseases ,Mice ,Th2 Cells ,Mice, Inbred NOD ,medicine ,Animals ,Homeostasis ,Immunology and Allergy ,Protein Interaction Domains and Motifs ,Transcription factor ,Mutation ,B-Lymphocytes ,FOXP3 ,Cell Differentiation ,Forkhead Transcription Factors ,hemic and immune systems ,medicine.disease ,Hypoxia-Inducible Factor 1, alpha Subunit ,Mice, Inbred C57BL ,Diabetes Mellitus, Type 1 ,Infectious Diseases ,Interferon Regulatory Factors ,Th17 Cells ,Interferon regulatory factors ,IRF4 ,Transcription Factors - Abstract
SummaryMaintenance of lymphoid homeostasis in a number of immunological and inflammatory contexts is served by a variety of regulatory T (Treg) cell subtypes and depends on interaction of the transcription factor FoxP3 with specific transcriptional cofactors. We report that a commonly used insertional mutant of FoxP3 (GFP-Foxp3) modified its molecular interactions, blocking HIF-1α but increasing IRF4 interactions. The transcriptional profile of these Treg cells was subtly altered, with an overrepresentation of IRF4-dependent transcripts. In keeping with IRF4-dependent function of Treg cells to preferentially suppress T cell help to B cells and Th2 and Th17 cell-type differentiation, GFP-FoxP3 mice showed a divergent susceptibility to autoimmune disease: protection against antibody-mediated arthritis in the K/BxN model, but greater susceptibility to diabetes on the NOD background. Thus, specific subfunctions of Treg cells and the immune diseases they regulate can be influenced by FoxP3's molecular interactions, which result in divergent immunoregulation.
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39. Locus-Specific Reversible DNA Methylation Regulates Transient IL-10 Expression in Th1 Cells.
- Author
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Choong-Gu Lee, Ravi Verma, Dipayan Rudra, Won Hwang, Changhon Lee, Sin-Hyeog Im, and Zee Yong Park
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DNA methylation , *T cells , *INTERLEUKIN-10 , *CYTOKINES , *HOMEOSTASIS - Abstract
IL-10 is a pleiotropic cytokine with multifaceted functions in establishing immune homeostasis. Although expressed by Th1 and Th2 cells, conventional Th1 cells produce marginal levels of IL-10 compared with their Th2 counterparts. In this study, we investigated the epigenetic mechanisms of Il-10 gene expression in Th1 cells. Bioinformatics EMBOSS CpG plot analysis and bisulfite pyrosequencing revealed three CpG DNA methylation sites in the Il-10 gene locus. Progressive DNA methylation at all of the CpG regions of interest (ROIs) established a repressive program of Il-10 gene expression in Th1 cells. Interestingly, Th1 cells treated with IL-12 and IL-27 cytokines, thereby mimicking a chronic inflammatory condition in vivo, displayed a significant increase in IL-10 production that was accompanied by selective DNA demethylation at ROI 3 located in intron 3. IL-10-producing T cells isolated from lymphocytic choriomeningitis virus-infected mice also showed enhanced DNA demethylation at ROI 3. Binding of STAT1 and STAT3 to demethylated ROI 3 enhanced IL-10 expression in an IL-12/IL-27-dependent manner. Accordingly, CD4+ T cells isolated from STAT1- or STAT3-knockout mice were significantly defective in IL-10 production. Our data suggest that, although stably maintained DNA methylation at the promoter may repress IL-10 expression in Th1 cells, locusspecific reversible DNA demethylation may serve as a threshold platform to control transient Il-10 gene expression. [ABSTRACT FROM AUTHOR]
- Published
- 2018
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