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Tukek T, Pehlivan S, Medetalibeyoglu A, Serin I, Oyacı Y, Arıcı H, Senkal N, Pehlivan M, Isoglu-Alkac U, Kose M. The suppressor of cytokine signaling-1 ( SOCS1) gene polymorphism and promoter methylation correlate with the course of COVID-19. Pathog Glob Health 2023; 117:392-400. [PMID: 36448222 PMCID: PMC10177741 DOI: 10.1080/20477724.2022.2151861] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/05/2022] Open
Abstract
The suppressor of the cytokine signaling-1 (SOCS1) gene is a short sequence located on chromosome 16 that functions to induce an appropriate immune response and is an essential physiological regulator of interferon (IFN) signaling. In addition to comparing the global DNA and SOCS1 gene promoter methylation status between our patients with coronavirus disease 2019 (COVID-19) and healthy controls, this study demonstrates the effect of the SOCS1 rs33989964 polymorphism on patients with COVID-19. The study group included 139 patients diagnosed with COVID-19 in our hospital's clinics between June and December 2020, and the control group included 78 healthy individuals. After comparing the initial gene polymorphisms of the patients with the healthy control group, three separate clinical subgroups were formed. The gene polymorphism distribution and the methylation status of SOCS1 were examined in these clinical subgroups. Hypomethylation of the SOCS1 gene was observed in the COVID-19 patient group compared to the healthy control group (p = 0.001). Between the patients divided into two separate clinical subgroups, those with severe and mild infections, the Del/Del genotype of the SOCS1 gene was more common in patients with severe infection than in patients with mild infection (p = 0.018). Patients with the CA/CA and CA/Del genotypes were 0.201 times more likely to have a severe infection (95% CI: 0.057-0.716, p = 0.007). Having a non-Del/Del genotype was a protective factor against severe infection. The effect of the SOCS1 rs33989964 polymorphism and methylation status of the SOCS1 gene throughout the COVID-19 pandemic could be significant contributions to the literature.
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Affiliation(s)
- Tufan Tukek
- Department of Internal Medicine, Faculty of Medicine, Istanbul University, Istanbul, Turkey
| | - Sacide Pehlivan
- Department of Medical Biology, Faculty of Medicine, Institute of Health Sciences, Istanbul University, Istanbul, Turkey
| | - Alpay Medetalibeyoglu
- Department of Internal Medicine, Faculty of Medicine, Istanbul University, Istanbul, Turkey
| | - Istemi Serin
- Department of Hematology, Istanbul Training and Research Hospital, University of Health Sciences, Istanbul, Turkey
| | - Yasemin Oyacı
- Department of Medical Biology, Faculty of Medicine, Institute of Health Sciences, Istanbul University, Istanbul, Turkey
| | - Huzeyfe Arıcı
- Department of Internal Medicine, Faculty of Medicine, Istanbul University, Istanbul, Turkey
| | - Naci Senkal
- Department of Internal Medicine, Faculty of Medicine, Istanbul University, Istanbul, Turkey
| | - Mustafa Pehlivan
- Department of Hematology, Faculty of Medicine, Gaziantep University, Gaziantep, Turkey
| | - Ummuhan Isoglu-Alkac
- Department of Physiology, Faculty of Medicine, Istanbul University, Istanbul, Turkey
| | - Murat Kose
- Department of Internal Medicine, Faculty of Medicine, Istanbul University, Istanbul, Turkey
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Uysalol M, Serin I, Oyacı Y, Yıldız R, Uysalol E, Pehlivan S. Association of Tumor Necrosis Factor-Alpha (TNF-α) and Suppressor of Cytokine Signaling-1 (SOCS-1) Gene Variants in Children with COVID-19. J PEDIAT INF DIS-GER 2023. [DOI: 10.1055/s-0042-1759801] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
Abstract
Objective The suppressor of cytokine signaling-1 (SOCS-1) gene is an essential physiological regulator of cytokine signaling. Tumor necrosis factor-α (TNF-α) is an important component of the immunological response. Herein, we aimed to investigate the effects of SOCS-1 (-1478 CA > Del) and TNF-α (-308) polymorphisms on disease susceptibility and prognosis in pediatric patients with coronavirus disease 2019 (COVID-19).
Methods One-hundred fifty COVID-19 patients in the COVID-19 emergency department between September 2020 and April 2021 and 80 healthy volunteers (control group) without any additional disease were included. Baseline gene polymorphisms were compared between the patient and healthy control groups. Afterward, the gene polymorphism distribution was examined by forming two separate clinical patients' subgroups.
Results While CA/CA and CA/Del gene variants of SOCS-1 were higher in the patient group, Del/Del genotype was more common in the control group (p < 0.05). The GG genotype of the TNF-α was significantly more common in the severe subgroup (p = 0.044). The GA genotype of TNF-α was associated with the risk of hospitalization (2.83-fold), while the GG genotype was found to be protective in terms of hospitalization (2.95-fold).
Conclusions This study will be a guide in terms of the presence of high cytokine release genotypes and COVID-19-related cytokine release syndromes.
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Affiliation(s)
- Metin Uysalol
- Department of Pediatrics, Division of Pediatric Emergency, Istanbul Faculty of Medicine, Istanbul University, Istanbul, Türkiye
| | - Istemi Serin
- Department of Hematology, Istanbul Training and Research Hospital, University of Health Science, Istanbul, Türkiye
| | - Yasemin Oyacı
- Department of Medical Biology and Genetics, Istanbul Faculty of Medicine, Istanbul University, Istanbul, Türkiye
| | - Raif Yıldız
- Department of Pediatrics, Division of Pediatric Emergency, Istanbul Faculty of Medicine, Istanbul University, Istanbul, Türkiye
| | - Ezgi Uysalol
- Department of Pediatric Hematology- Oncology, Basaksehir Cam and Sakura City Hospital, Istanbul, Türkiye
| | - Sacide Pehlivan
- Department of Medical Biology and Genetics, Istanbul Faculty of Medicine, Istanbul University, Istanbul, Türkiye
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Tuncel FC, Serin I, Pehlivan S, Oyaci Y, Pehlivan M. Epigenetic and genetic investigation of SOCS-1 gene in patients with multiple myeloma. Blood Res 2022; 57:250-255. [PMID: 36289192 PMCID: PMC9812727 DOI: 10.5045/br.2022.2022097] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2022] [Revised: 08/17/2022] [Accepted: 09/08/2022] [Indexed: 02/01/2023] Open
Abstract
Background The suppressor of cytokine signaling-1 (SOCS-1) functions to induce an appropriate immune response and is an essential physiological regulator of interferon signaling. DNA methylation involves adding a methyl group to the carbon 5 position of cytosine. Besides comparing SOCS-1 gene methylation status between patients with multiple myeloma (MM) and healthy controls, this study also aimed to demonstrate the effect of SOCS-1 gene distribution and the effect of methylation of SOCS-1 on progression-free survival (PFS) and overall survival (OS). Methods This study included 120 patients diagnosed with MM between January 2018 and 2020 and 80 healthy individuals. The distribution of the SOCS-1 genotypes was statistically compared between MM patients and healthy controls. Additionally, the statistically significant effects of these genotypes on survival were examined. Results The CA/CA genotype of SOCS-1 was significantly higher in healthy controls (P=0.001), while the Del/Del genotype was significantly higher in patients with MM (P=0.034). The percent methylated reference (PMR) value of the SOCS-1 gene was significantly higher in the healthy controls (median, 43.48; range, 2.76‒247.75; P=0.001). Patients with a PMR value of ≥43.48 were 3.125 times more likely to develop progression than those with a PMR value of <43.48. Conclusion The effects of SOCS-1 polymorphisms on the pathogenesis of.
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Affiliation(s)
- Fatıma Ceren Tuncel
- Department of Medical Biology, Faculty of Medicine, Institute of Health Sciences, Istanbul University, Istanbul, Turkey
| | - Istemi Serin
- Department of Hematology, Istanbul Training and Research Hospital, University of Health Sciences, Istanbul, Turkey,Correspondence to Istemi Serin, M.D., Department of Hematology, Istanbul Training and Research Hospital, University of Health Sciences, Org. Nafiz Gurman Cad. Fatih 34098, Istanbul, Turkey, E-mail:
| | - Sacide Pehlivan
- Department of Medical Biology, Faculty of Medicine, Institute of Health Sciences, Istanbul University, Istanbul, Turkey
| | - Yasemin Oyaci
- Department of Medical Biology, Faculty of Medicine, Institute of Health Sciences, Istanbul University, Istanbul, Turkey
| | - Mustafa Pehlivan
- Department of Hematology, Faculty of Medicine, Gaziantep University, Gaziantep, Turkey
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Uysalol EP, Uysalol M, Pehlivan M, Oyaci Y, Pehlivan S, Serin I. Association of mannose-binding lectin 2 (MBL2) and suppressor of cytokine signaling-1 (SOCS1) gene variants in children with febrile neutropenia. J Infect Chemother 2022; 28:657-662. [PMID: 35115241 DOI: 10.1016/j.jiac.2022.01.012] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2021] [Revised: 12/15/2021] [Accepted: 01/17/2022] [Indexed: 11/19/2022]
Abstract
INTRODUCTION Febrile neutropenia (FEN) was reported in patients with solid malignancies at a rate of 5-10% and in patients with hematological malignancies at a rate of 20-25%. In our study, we aimed to investigate the effects of mannose-binding lectin 2 (MBL2) (rs1800450) and suppressor of cytokine signaling-1 (SOCS1) (rs33989964) gene variants on patients with FEN. METHODS A total of 123 patients who applied to pediatric emergency department between December 2019-12/2020 included in the study. Thirteen patients were excluded from the study due to the inability to obtain DNA. Demographic-clinical features at initial diagnosis and genotype distributions were recorded. The control group consisted of volunteers with the same ethnicity, age and gender, no active infection, and no consanguinity. RESULTS CA/CA genotype of SOCS1 was found to be significantly higher in the healthy control group (p = 0.028). AB/BB genotype of MBL2 was significantly higher in FEN patients with a MASCC score of high risk, AA genotype was found to be higher in patients with low risk (p = 0.001). While the rate of microbiologically documented infection (MDI) was significantly lower in patients with the AA genotype of MBL2, it was significantly higher in patients with AA/BB genotypes (p = 0.025). MDI rate in patients with the del/del genotype of SOCS1 was found to be significantly lower than in patients with CA/CA + CA/del genotypes (p = 0.026). CONCLUSIONS In this study, it was revealed that low expression-related MBL2 genotypes were riskier for FEN and also, gene variants associated with high SOCS1 transcription were both protective against FEN and increased the rate of culture-negativity.
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Affiliation(s)
- Ezgi Pasli Uysalol
- Basaksehir Cam and Sakura City Hospital, Department of Pediatric Hematology- Oncology, Turkey
| | - Metin Uysalol
- Istanbul University, Istanbul Faculty of Medicine, Department of Pediatrics, Division of Pediatric Emergency, Turkey
| | - Mustafa Pehlivan
- Gaziantep University, Faculty of Medicine, Department of Hematology, Turkey
| | - Yasemin Oyaci
- Istanbul University, Istanbul Faculty of Medicine, Department of Medical Biology and Genetics, Turkey
| | - Sacide Pehlivan
- Istanbul University, Istanbul Faculty of Medicine, Department of Medical Biology and Genetics, Turkey
| | - Istemi Serin
- University of Health Science, Istanbul Training and Research Hospital, Department of Department of Hematology, Turkey.
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J.H. Martinez C, Villafuerte KR, Luchiari HR, O. Cruz J, Sales M, Palioto DB, Messora MR, Souza SL, Taba M, Ramos ES, Novaes AB. Effect of smoking on the DNA methylation pattern of the SOCS1 promoter in epithelial cells from the saliva of patients with chronic periodontitis. J Periodontol 2019; 90:1279-1286. [DOI: 10.1002/jper.18-0692] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2018] [Revised: 02/24/2019] [Accepted: 02/24/2019] [Indexed: 12/12/2022]
Affiliation(s)
- Cristhiam J.H. Martinez
- Department of Oral & Maxillofacial Surgery, and PeriodontologySchool of Dentistry of Ribeirão PretoUniversity of São Paulo Ribeirão Preto SP Brazil
| | - Kelly R.V. Villafuerte
- Department of Oral & Maxillofacial Surgery, and PeriodontologySchool of Dentistry of Ribeirão PretoUniversity of São Paulo Ribeirão Preto SP Brazil
| | - Heloise R. Luchiari
- Laboratory of Epigenetics and ReproductionDepartment of GeneticsRibeirão Preto Medical SchoolUniversity of São Paulo Ribeirão Preto SP Brazil
| | - Juliana O. Cruz
- Laboratory of Epigenetics and ReproductionDepartment of GeneticsRibeirão Preto Medical SchoolUniversity of São Paulo Ribeirão Preto SP Brazil
| | - Mariana Sales
- Department of Oral & Maxillofacial Surgery, and PeriodontologySchool of Dentistry of Ribeirão PretoUniversity of São Paulo Ribeirão Preto SP Brazil
| | - Daniela B. Palioto
- Department of Oral & Maxillofacial Surgery, and PeriodontologySchool of Dentistry of Ribeirão PretoUniversity of São Paulo Ribeirão Preto SP Brazil
| | - Michel R. Messora
- Department of Oral & Maxillofacial Surgery, and PeriodontologySchool of Dentistry of Ribeirão PretoUniversity of São Paulo Ribeirão Preto SP Brazil
| | - Sergio L.S. Souza
- Department of Oral & Maxillofacial Surgery, and PeriodontologySchool of Dentistry of Ribeirão PretoUniversity of São Paulo Ribeirão Preto SP Brazil
| | - Mario Taba
- Department of Oral & Maxillofacial Surgery, and PeriodontologySchool of Dentistry of Ribeirão PretoUniversity of São Paulo Ribeirão Preto SP Brazil
| | - Ester S. Ramos
- Laboratory of Epigenetics and ReproductionDepartment of GeneticsRibeirão Preto Medical SchoolUniversity of São Paulo Ribeirão Preto SP Brazil
| | - Arthur B. Novaes
- Department of Oral & Maxillofacial Surgery, and PeriodontologySchool of Dentistry of Ribeirão PretoUniversity of São Paulo Ribeirão Preto SP Brazil
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Identification of the Disrupted Pathways Associated with Periodontitis Based on Human Pathway Network. INFECTION INTERNATIONAL 2016. [DOI: 10.1515/ii-2017-0143] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Abstract
AbstractObjective: The objective of this work is to search for a novel method to explore the disrupted pathways associated with periodontitis (PD) based on the network level.Methods: Firstly, the differential expression genes (DEGs) between PD patients and cognitively normal subjects were inferred based on LIMMA package. Then, the protein-protein interactions (PPI) in each pathway were explored by Empirical Bayesian (EB) co-expression program. Specifically, we determined the 100th weight value as the threshold value of the disrupted pathways of PPI by constructing the randomly model and confirmed the weight value of each pathway. Meanwhile, we dissected the disrupted pathways under the weight value > the threshold value. Pathways enrichment analyses of DEGs were carried out based on Expression Analysis Systematic Explored (EASE) test. Finally, the better method was selected based on the more rich and significant obtained pathways by comparing the two methods.Results: After the calculation of LIMMA package, we estimated 524 DEGs in all. Then we determined 0.115222 as the threshold value of the disrupted pathways of PPI. When the weight value>0.115222, there were 258 disrupted pathways of PPI enriched in. Additionally, we observed those 524 DEGs that were enriched in 4 pathways under EASE=0.1.Conclusion: We proposed a novel network method inferring the disrupted pathway for PD. The disrupted pathways might be underlying biomarkers for treatment associated with PD.
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