35 results on '"Sikder K"'
Search Results
2. Particle Size Management Studies on Spherical 3-Nitro-1,2,4-triazol-5-one
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Patil S. Rajendra, Gore M. Girish, S. Radhakrishnan, Sikder K. Arun, and Ramavat Vijayalakshmi
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Ternary numeral system ,Materials science ,Explosive material ,Mineralogy ,General Chemistry ,Condensed Matter Physics ,Energetic material ,Agitator ,law.invention ,Chemical engineering ,law ,Particle-size distribution ,Particle ,General Materials Science ,Particle size ,Crystallization - Abstract
Particle shape and size of an energetic material play a vital role in achieving explosive formulations with optimal performance that decides the realization of high bulk and theoretical maximum density (TMD) and mix fluidity during their processing. 3-Nitro-1, 2, 4-triazol-5-one (NTO) is an insensitive thermally stable high explosive and explored as a potential replacement of RDX in explosive formulations. This study investigates the preparation of spherical NTO in NTO: water: 1-methyl-2-pyrolidone ternary system and the particle size management of spherical NTO by cooling crystallization technique. Crystallization operation variables like cooling rate, agitator configuration, speed, etc. have been systematically studied to understand their effect on the spheroidization process. Synthesized spherical NTO has been characterized by spectral, thermal and microscopic studies. The study established the process parameters to achieve selective particle size distribution ranging from 10 to 200 μm. Bulk density of the spherical NTO has been determined and correlated with particle size distribution.
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- 2011
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3. Particle Size Management Studies on Spherical 3-Nitro-1,2,4-triazol-5-one
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Vijayalakshmi, Ramavat, primary, Radhakrishnan, Sarangapani, additional, Rajendra, Patil S., additional, Girish, Gore M., additional, and Arun, Sikder K., additional
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- 2011
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4. A phase I/II study of imatinib and docetaxel as neoadjuvant therapy in locally advanced breast cancer
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Haley, B. B., primary, Ashfaq, R., additional, DeHaas, M., additional, Ramaswami, A., additional, Sikder, K., additional, and Tripathy, D., additional
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- 2007
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5. Particle Size Management Studies on Spherical 3-Nitro-1,2,4-triazol-5-one.
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Vijayalakshmi, Ramavat, Radhakrishnan, Sarangapani, Rajendra, Patil S., Girish, Gore M., and Arun, Sikder K.
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- 2012
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6. Synthetic Molecules as Antibody Replacements
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Kodadek, T., Reddy, M. M., Olivos, H. J., Bachhawat-Sikder, K., and Alluri, P. G.
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Antibodies are by far the most versatile, valuable, and widely used protein-binding agents. They are essential tools in biological research and are increasingly being developed as therapeutic reagents. However, antibodies have a number of practical limitations, and it would be desirable in many applications to replace them with simpler, more robust synthetic molecules. Unfortunately, synthetic protein-binding agents rarely exhibit the high affinity and specificity typical of a good antibody. This article reviews efforts to overcome these limitations and to develop a facile, high-throughput methodology for the isolation of synthetic protein ligands with antibody-like binding characteristics.
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- 2004
7. Quercetin and β-sitosterol prevent high fat diet induced dyslipidemia and hepatotoxicity in Swiss albino mice
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Sikder, K., NILANJAN DAS, Kesh, S. B., and Dey, S.
8. Leukocyte infiltration and cross-talk with cardiomyocytes exploit intracellular stress pathways in dilated cardiomyopathy of idiopathic origin.
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Talukdar D, Haldar AK, Kumar S, Dastidar R, Basu A, Roy A, Sarkar S, Dey S, and Sikder K
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- Humans, Female, Male, Mice, Middle Aged, Animals, Adult, Cell Movement, RAW 264.7 Cells, Tumor Necrosis Factor-alpha metabolism, Tumor Necrosis Factor-alpha blood, Inflammation metabolism, Inflammation pathology, Interleukin-1beta metabolism, Monocytes metabolism, Cardiomyopathy, Dilated metabolism, Cardiomyopathy, Dilated physiopathology, Myocytes, Cardiac metabolism, Myocytes, Cardiac pathology, Leukocytes metabolism
- Abstract
Background and Objective: Dilated cardiomyopathy (DCM) is a prevalent form of heart failure results in dilation and disruption of heart. Most strikingly a majority of the DCM cases do not have any identified etiology, hence known as idiopathic DCM (IDCM). Our study aimed to investigate the cross-talk between leukocytes and cardiomyocytes in terms of cardiac inflammation and stress response in IDCM., Methods: 60 IDCM patients and 60 age and sex matched healthy volunteers were recruited in this study based on the New York Heart Association (NYHA) guidelines. Their echocardiographic and biochemical markers were assessed and PBMCs were analyzed for leukocyte migration and inflammation. Also C2C12 myocyte cells were cultured with LPS-activated RAW264.7 monocytes to investigate the cross-talk between them., Results: Left ventricular (LV) dysfunction was evident in the IDCM patients which were correlated with their physical discomfort level according to NYHA classification. Their serum levels of IL-1β and TNF-α (≈ 20 pg/ml) were found to be very high along with hs-CRP and IL-2. Elevated levels of ROCK, SMA and ICAM-1 proteins indicated activation and migration of the leukocytes. During monocyte-myocyte co-culture, robust diapedesis was observed in the cultured macrophage cells towards myocytes through the transwell pores (8 µM) in presence of IL-1β and TNF-α causing ER stress and cell death in the myocytes. Inhibition of this migration or by alleviating ER stress inhibits leukocyte recruitment and ensures protection to the myocytes., Conclusion: The present study showed that alleviating cellular stress and managing leukocyte migration promotes protection to the heart., (© 2024. The Author(s), under exclusive licence to Springer Nature B.V.)
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- 2024
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9. A Comparative Study on the Efficacy Between Cystatin C and Creatinine-Based Equations for Early Detection of Renal Damage in Patients of Eastern India.
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Dastidar R, Sikder K, and Das B
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Chronic kidney disease (CKD) is one of the leading causes of mortality across the globe. Early diagnosis of the disease is important in order to prevent the adverse outcome related to CKD. Many laboratories adopt creatinine-based e-GFR equations which yields imprecise results leading to misdiagnosis of CKD. Emerging studies indicated cystatin C as a better renal marker than creatinine. The aim of the study is to compare the efficacy of CKD epidemiology collaboration (CKD-EPI) creatinine e-GFR equations with (CKD EPI) cystatin-based e-GFR equations alone and in combination with creatinine for early detection of CKD. A cross-sectional study employing 473 patients was conducted. Three estimating GFR equations were calculated based on creatinine and cystatin C. Pearson Correlation study was done to assess the correlation of creatinine and cystatin C with their respective GFRs. A predictive model was developed, and ROC curve was constructed to compare efficacy, sensitivity and specificity of the creatinine and cystatin C based equations. Cystatin C exhibited better negative correlation with GFR than creatinine in correlation study performed with three commonly employed eGFR equations including CKD EPI Creatine cystatin C combined equation (2021), cys C alone and CKD EPI creatinine (2021) equations respectively[r=(-) 0.801 vs. r=(-)0.786 vs. r=(-)0.773]. Predictive model demonstrated highest efficiency, sensitivity and specificity for creatinine-cystatin C combined equation (88%, 81% and 93%) followed by cystatin C alone equation (73%,63% and 82%) and creatinine-based equation (61%, 56% and 66% respectively). The study showed better performance of cystatin C based equations for early detection of advance stages in chronic kidney disease as compared to creatinine-based e-GFR equation., Competing Interests: Conflict of interestThe authors declare no conflict of interest for this study., (© The Author(s), under exclusive licence to Association of Clinical Biochemists of India 2023. Springer Nature or its licensor (e.g. a society or other partner) holds exclusive rights to this article under a publishing agreement with the author(s) or other rightsholder(s); author self-archiving of the accepted manuscript version of this article is solely governed by the terms of such publishing agreement and applicable law.)
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- 2024
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10. Perinuclear damage from nuclear envelope deterioration elicits stress responses that contribute to LMNA cardiomyopathy.
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Sikder K, Phillips E, Zhong Z, Wang N, Saunders J, Mothy D, Kossenkov A, Schneider T, Nichtova Z, Csordas G, Margulies KB, and Choi JC
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- Animals, Mice, Autophagy, Stress, Physiological, Disease Models, Animal, Endoplasmic Reticulum Stress, Golgi Apparatus metabolism, Mice, Knockout, Lamin Type A metabolism, Lamin Type A genetics, Nuclear Envelope metabolism, Cardiomyopathies metabolism, Cardiomyopathies etiology, Cardiomyopathies pathology, Cardiomyopathies genetics, Myocytes, Cardiac metabolism, Myocytes, Cardiac pathology
- Abstract
Mutations in the LMNA gene encoding lamins A/C cause an array of tissue-selective diseases, with the heart being the most commonly affected organ. Despite progress in understanding the perturbations emanating from LMNA mutations, an integrative understanding of the pathogenesis underlying cardiac dysfunction remains elusive. Using a novel conditional deletion model capable of translatome profiling, we observed that cardiomyocyte-specific Lmna deletion in adult mice led to rapid cardiomyopathy with pathological remodeling. Before cardiac dysfunction, Lmna -deleted cardiomyocytes displayed nuclear abnormalities, Golgi dilation/fragmentation, and CREB3-mediated stress activation. Translatome profiling identified MED25 activation, a transcriptional cofactor that regulates Golgi stress. Autophagy is disrupted in the hearts of these mice, which can be recapitulated by disrupting the Golgi. Systemic administration of modulators of autophagy or ER stress significantly delayed cardiac dysfunction and prolonged survival. These studies support a hypothesis wherein stress responses emanating from the perinuclear space contribute to the LMNA cardiomyopathy development.
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- 2024
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11. Perinuclear damage from nuclear envelope deterioration elicits stress responses that contribute to LMNA cardiomyopathy.
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Sikder K, Phillips E, Zhong Z, Wang N, Saunders J, Mothy D, Kossenkov A, Schneider T, Nichtova Z, Csordas G, Margulies KB, and Choi JC
- Abstract
Mutations in the LMNA gene encoding nuclear lamins A/C cause a diverse array of tissue-selective diseases, with the heart being the most commonly affected organ. Despite progress in understanding the molecular perturbations emanating from LMNA mutations, an integrative understanding of the pathogenesis leading to cardiac dysfunction remains elusive. Using a novel cell-type specific Lmna deletion mouse model capable of translatome profiling, we found that cardiomyocyte-specific Lmna deletion in adult mice led to rapid cardiomyopathy with pathological remodeling. Prior to the onset of cardiac dysfunction, lamin A/C-depleted cardiomyocytes displayed nuclear envelope deterioration, golgi dilation/fragmentation, and CREB3-mediated golgi stress activation. Translatome profiling identified upregulation of Med25, a transcriptional co-factor that can selectively dampen UPR axes. Autophagy is disrupted in the hearts of these mice, which can be recapitulated by disrupting the golgi or inducing nuclear damage by increased matrix stiffness. Systemic administration of pharmacological modulators of autophagy or ER stress significantly improved the cardiac function. These studies support a hypothesis wherein stress responses emanating from the perinuclear space contribute to the development of LMNA cardiomyopathy., Teaser: Interplay of stress responses underlying the development of LMNA cardiomyopathy.
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- 2023
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12. Efficient Synergistic Antibacterial Activity of α-MSH Using Chitosan-Based Versatile Nanoconjugates.
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Barman S, Chakraborty A, Saha S, Sikder K, Maitra Roy S, Modi B, Bahadur S, Khan AH, Manna D, Bag P, Sarkar AK, Bhattacharya R, Basu A, and Maity AR
- Abstract
The application of antimicrobial peptides has emerged as an alternative therapeutic tool to encounter against multidrug resistance of different pathogenic organisms. α-Melanocyte stimulating hormone (α-MSH), an endogenous neuropeptide, is found to be efficient in eradicating infection of various kinds of Staphylococcus aureus , including methicillin-resistant Staphylococcus aureus (MRSA). However, the chemical stability and efficient delivery of these biopharmaceuticals (i.e., α-MSH) to bacterial cells with a significant antibacterial effect remains a key challenge. To address this issue, we have developed a chitosan-cholesterol polymer using a single-step, one-pot, and simple chemical conjugation technique, where α-MSH is loaded with a significantly high amount (37.7%), and the final product is obtained as chitosan-cholesterol α-MSH polymer-drug nanoconjugates. A staphylococcal growth inhibition experiment was performed using chitosan-cholesterol α-MSH and individual controls. α-MSH and chitosan-cholesterol both show bacterial growth inhibition by a magnitude of 50 and 79%, respectively. The killing efficiency of polymer-drug nanoconjugates was very drastic, and almost no bacterial colony was observed (∼100% inhibition) after overnight incubation. Phenotypic alternation was observed in the presence of α-MSH causing changes in the cell structure and shape, indicating stress on Staphylococcus aureus . As a further consequence, vigorous cell lysis with concomitant release of the cellular material in the nearby medium was observed after treatment of chitosan-cholesterol α-MSH nanoconjugates. This vigorous lysis of the cell structure is associated with extensive aggregation of the bacterial cells evident in scanning electron microscopy (SEM). The dose-response experiment was performed with various concentrations of chitosan-cholesterol α-MSH nanoconjugates to decipher the degree of the bactericidal effect. The concentration of α-MSH as low as 1 pM also shows significant inhibition of bacterial growth (∼40% growth inhibition) of Staphylococcus aureus . Despite playing an important role in inhibiting bacterial growth, our investigation on hemolytic assay shows that chitosan-cholesterol α-MSH is significantly nontoxic at a wide range of concentrations. In a nutshell, our analysis demonstrated novel antimicrobial activity of nanoparticle-conjugated α-MSH, which could be used as future therapeutics against multidrug-resistant Staphylococcus aureus and other types of bacterial cells., Competing Interests: The authors declare no competing financial interest., (© 2023 The Authors. Published by American Chemical Society.)
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- 2023
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13. Med25 Limits Master Regulators That Govern Adipogenesis.
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Saunders J, Sikder K, Phillips E, Ishwar A, Mothy D, Margulies KB, and Choi JC
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- Animals, Mice, 3T3-L1 Cells, Cell Differentiation, Lipids pharmacology, Mediator Complex genetics, Mediator Complex metabolism, PPAR gamma metabolism, Transcription Factors metabolism, Adipogenesis genetics, Lamin Type A genetics, Lamin Type A metabolism
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Mediator 25 (Med25) is a member of the mediator complex that relays signals from transcription factors to the RNA polymerase II machinery. Multiple transcription factors, particularly those involved in lipid metabolism, utilize the mediator complex, but how Med25 is involved in this context is unclear. We previously identified Med25 in a translatome screen of adult cardiomyocytes (CMs) in a novel cell type-specific model of LMNA cardiomyopathy. In this study, we show that Med25 upregulation is coincident with myocardial lipid accumulation. To ascertain the role of Med25 in lipid accumulation, we utilized iPSC-derived and neonatal CMs to recapitulate the in vivo phenotype by depleting lamins A and C (lamin A/C) in vitro. Although lamin A/C depletion elicits lipid accumulation, this effect appears to be mediated by divergent mechanisms dependent on the CM developmental state. To directly investigate Med25 in lipid accumulation, we induced adipogenesis in Med25 -silenced 3T3-L1 preadipocytes and detected enhanced lipid accumulation. Assessment of pertinent mediators driving adipogenesis revealed that C/EBPα and PPARγ are super-induced by Med25 silencing. Our results indicate that Med25 limits adipogenic potential by suppressing the levels of master regulators that govern adipogenesis. Furthermore, we caution the use of early-developmental-stage cardiomyocytes to model adult-stage cells, particularly for dissecting metabolic perturbations emanating from LMNA mutations.
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- 2023
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14. Diagnostic reliability of serum active B12 (holo-transcobalamin) in true evaluation of vitamin B12 deficiency: Relevance in current perspective.
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Dastidar R and Sikder K
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- Humans, Retrospective Studies, Reproducibility of Results, Vitamin B 12, Biomarkers, Homocysteine, Transcobalamins, Vitamin B 12 Deficiency diagnosis
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Objective: Measurement of total vitamin B12 (vit B12) concentration raised concerns over early detection of vit B12 deficiency due to its clinical unreliability. In this present article we aimed to assess the efficacy of holo-transcobolamin (active vit B12) for true evaluation of vit B12 deficiency., Methods: This retrospective study included 100 participants referred for vit B12 assay. Serum total vit B12, active vit B12 and homocysteine were estimated., Results: Our study showed 59% of the total participants with vit B12 deficiency (185 ± 64.62 pg/ml) and 18% with hyper-cobalaminemia (1666.9 ± 367.13 pg/ml) based on their total vit B12 concentrations. A comparative study on total vit B12 and active vit B12 was done which reflected a striking disparity in results. Active vit B12 reported 28.8% patients with vit B12 deficiency (19.8 ± 17.48 pg/ml) and only 16.6% patients with hyper-cobalaminemia (224.14 ± 10 pg/ml). Active vit B12 appeared to be more sensitive (82.35% vs 65%) and specific (46.6% vs. 43.8%) diagnostic marker compared to total vit B12. Pearson Correlation study indicated a strong positive correlation (r = 0.695 at p < 0.01) hence justified use of the two methods., Conclusion: We claim that active vit B12 is a much more reliable biomarker than total vit B12 for early diagnosis of vit B12 deficiency., (© 2022. The Author(s).)
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- 2022
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15. The structure-function analysis of Obg-like GTPase proteins along the evolutionary tree from bacteria to humans.
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Chakraborty A, Halder S, Kishore P, Saha D, Saha S, Sikder K, and Basu A
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- Amino Acid Sequence, Bacterial Proteins metabolism, Guanine, Guanosine Triphosphate metabolism, Humans, Bacteria, GTP Phosphohydrolases metabolism
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Obg proteins belong to P-loop guanine triphosphatase (GTPase) that are conserved from bacteria to humans. Like other GTPases, Obg cycles between guanine triphosphate (GTP) bound "on" state and guanine diphosphate (GDP)-bound "off" state, thereby controlling various cellular processes. Different members of this group have unique structural characteristics; a conserved glycine-rich N-terminal domain known as obg fold, a central conserved nucleotide binding domain, and a less conserved C-terminal domain of other functions. Obg is a ribosome dependent GTPase helps in ribosome maturation by interacting with several proteins of the 50S subunit of the ribosome. Obg proteins have been widely considered as a regulator of cellular functions, helping in DNA replication, cell division. Apart from that, this protein also takes part in various stress adaptation pathways like a stringent response, sporulation, and general stress response. In this particular review, the structural features of ObgE have been highlighted and how the structure plays important role in interacting with regulators like GTP, ppGpp that are crucial for executing biological function has been orchestrated. In particular, we believe that Obg-like proteins can provide a link between different global pathways that are necessary for fine-tuning cellular processes to maintain the cellular energy status., (© 2022 Molecular Biology Society of Japan and John Wiley & Sons Australia, Ltd.)
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- 2022
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16. Inflammatory Serine Proteases Play a Critical Role in the Early Pathogenesis of Diabetic Cardiomyopathy.
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Kolpakov MA, Sikder K, Sarkar A, Chaki S, Shukla SK, Guo X, Qi Z, Barbery C, Sabri A, and Rafiq K
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- Animals, Apoptosis, Blood Glucose analysis, Cathepsin C genetics, Diabetes Mellitus, Experimental chemically induced, Diabetes Mellitus, Experimental complications, Diabetes Mellitus, Experimental pathology, Diabetic Cardiomyopathies etiology, Down-Regulation, Fibrosis, Heart physiology, Heart Ventricles metabolism, Interleukin-1beta metabolism, Male, Mice, Mice, Inbred C57BL, Mice, Knockout, Neutrophils cytology, Neutrophils immunology, Proto-Oncogene Proteins c-bcl-2 metabolism, Tumor Necrosis Factor-alpha metabolism, bcl-2-Associated X Protein metabolism, Cathepsin C metabolism, Diabetic Cardiomyopathies pathology, Serine Proteases metabolism
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Background/aims: Diabetic cardiomyopathy (DCM) is characterized by structural and functional alterations that can lead to heart failure. Several mechanisms are known to be involved in the pathogenesis of DCM, however, the molecular mechanism that links inflammation to DCM is incompletely understood. To learn about this mechanism, we investigated the role of inflammatory serine proteases (ISPs) during the development of DCM., Methods: Eight weeks old mice with deletion of dipeptidyl peptidase I (DPPI), an enzyme involved in the maturation of major ISPs, and wild type (WT) mice controls were injected with streptozotocin (50 mg/kg for 5 days intraperitoneally) and studied after 4, 8, 16, and 20 week after induction of type 1 diabetes mellitus (T1DM). Induction of diabetes was followed by echocardiographic measurements, glycemic and hemoglobulin A1c profiling, immunoblot, qPCR, enzyme activity assays, and immunohistochemistry (IHC) analysis of DPPI, ISPs, and inflammatory markers. Fibrosis was determined from left ventricular heart by Serius Red staining and qPCR. Apoptosis was determined by TUNEL assay and immunoblot analysis., Results: In the diabetic WT mice, DPPI expression increased along with ISP activation, and DPPI accumulated abundantly in the left ventricle mainly from infiltrating neutrophils. In diabetic DPPI-knockout (DPPI-KO) mice, significantly decreased activation of ISPs, myocyte apoptosis, fibrosis, and cardiac function was improved compared to diabetic WT mice. In addition, DPPI-KO mice showed a decrease in overall inflammatory status mediated by diabetes induction which was manifested by decreased production of pro-inflammatory cytokines like TNF-α, IL-1β and IL-6., Conclusion: This study elucidates a novel role of ISPs in potentiating the immunological responses that lead to the pathogenesis of DCM in T1DM. To the best of our knowledge, this is the first study to report that DPPI expression and activation promotes the inflammation that enhances myocyte apoptosis and contributes to the adverse cardiac remodeling that subsequently leads to DCM., Competing Interests: The authors declare no conflict of interests., (© Copyright by the Author(s). Published by Cell Physiol Biochem Press.)
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- 2019
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17. Molecular network, pathway, and functional analysis of time-dependent gene changes related to cathepsin G exposure in neonatal rat cardiomyocytes.
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Shukla SK, Sikder K, Sarkar A, Addya S, and Rafiq K
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- Animals, Animals, Newborn, Cell Proliferation drug effects, Cells, Cultured, Gene Expression Profiling, Gene Expression Regulation drug effects, Myocytes, Cardiac drug effects, Rats, Software, Time Factors, Cathepsin G pharmacology, Gene Regulatory Networks drug effects, Myocytes, Cardiac cytology, Oligonucleotide Array Sequence Analysis methods
- Abstract
The molecular pathways activated in response to acute cathepsin G (CG) exposure, as well as the mechanisms involved in activation of signaling pathways that culminate in myocyte detachment and apoptosis remain unclear. This study aimed to determine the changes in gene expression patterns associated with time dependent CG exposure to neonatal rat cardiomyocytes (NRCMs). Microarray analysis revealed a total of 451, 572 and 1127 differentially expressed genes after CG exposure at 1, 4 and 8 h respectively. A total of 54 overlapped genes at each time point were mapped by Ingenuity Pathway Analysis (IPA). The top up-regulated genes included Hamp, SMAD6, NR4A1, FOSL2, ID3 and SLAMF7, and down-regulated genes included CYR61, GDF6, Olr640, Vom2r36, DUSP6 and MMP20. Our data suggest that there are multiple deregulated pathways associated with cardiomyocyte death after CG exposure, including JAK/Stat signaling, IL-9 signaling and Nur77 signaling. In addition, we also generated the molecular network of expressed gene and found most of the molecules were connected to ERK1/2, caspase, BCR (complex) and Cyclins. Our study reveals the ability to assess time-dependent changes in gene expression patterns in NRCMs associated with CG exposure. The global gene expression profiles may provide insight into the cellular mechanism that regulates CG dependent myocyte apoptosis. In future, the pathways important in CG response, as well as the genes found to be differentially expressed might represent the therapeutic targets for myocyte survival in heart failure., (Copyright © 2018 Elsevier B.V. All rights reserved.)
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- 2018
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18. High Fat Diet Upregulates Fatty Acid Oxidation and Ketogenesis via Intervention of PPAR-γ.
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Sikder K, Shukla SK, Patel N, Singh H, and Rafiq K
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- Animals, Diabetes Mellitus, Type 2 blood, Diabetes Mellitus, Type 2 etiology, Diabetes Mellitus, Type 2 pathology, Diabetic Cardiomyopathies blood, Diabetic Cardiomyopathies etiology, Diabetic Cardiomyopathies pathology, Fatty Acids blood, Hypertrophy, Left Ventricular blood, Hypertrophy, Left Ventricular etiology, Hypertrophy, Left Ventricular metabolism, Hypertrophy, Left Ventricular pathology, Ketone Bodies blood, Male, Mice, Inbred C57BL, Oxidation-Reduction, Ventricular Dysfunction, Left blood, Ventricular Dysfunction, Left etiology, Ventricular Dysfunction, Left pathology, Diabetes Mellitus, Type 2 metabolism, Diabetic Cardiomyopathies metabolism, Diet, High-Fat adverse effects, Fatty Acids metabolism, Ketone Bodies metabolism, PPAR gamma metabolism, Ventricular Dysfunction, Left metabolism
- Abstract
Background/aims: Systemic hyperlipidemia and intracellular lipid accumulation induced by chronic high fat diet (HFD) leads to enhanced fatty acid oxidation (FAO) and ketogenesis. The present study was aimed to determine whether activation of peroxisome proliferator-activated receptor-γ (PPAR-γ) by surplus free fatty acids (FA) in hyperlipidemic condition, has a positive feedback regulation over FAO and ketogenic enzymes controlling lipotoxicity and cardiac apoptosis., Methods: 8 weeks old C57BL/6 wild type (WT) or PPAR-γ-/- mice were challenged with 16 weeks 60% HFD to induce obesity mediated type 2 diabetes mellitus (T2DM) and diabetic cardiomyopathy. Treatment course was followed by echocardiographic measurements, glycemic and lipid profiling, immunoblot, qPCR and immunohistochemistry (IHC) analysis of PPAR-γ and following mitochondrial metabolic enzymes 3-hydroxy-3-methylglutaryl-CoA synthase (HMGCS2), mitochondrial β- hydroxy butyrate dehydrogenase (BDH1) and pyruvate dehydrogenase kinase isoform 4 (PDK4). In vivo model was translated in vitro, with neonatal rat cardiomyocytes (NRCM) treated with PPAR-γ agonist/antagonist and PPAR-γ overexpression adenovirus in presence of palmitic acid (PA). Apoptosis was determined in vivo from left ventricular heart by TUNEL assay and immunoblot analysis., Results: We found exaggerated circulating ketone bodies production and expressions of the related mitochondrial enzymes HMGCS2, BDH1 and PDK4 in HFD-induced diabetic hearts and in PA-treated NRCM. As a mechanistic approach we found HFD mediated activation of PPAR-γ is associated with the above-mentioned mitochondrial enzymes. HFD-fed PPAR-γ-/-mice display decreased hyperglycemia, hyperlipidemia associated with increased insulin responsiveness as compared to HFD-fed WT mice PPAR-γ-/-HFD mice demonstrated a more robust functional recovery after diabetes induction, as well as significantly reduced myocyte apoptosis and improved cardiac function., Conclusions: PPAR-γ has been described previously to regulate lipid metabolism and adipogenesis. The present study suggests for the first time that increased PPAR-γ expression by HFD is responsible for cardiac dysfunction via upregulation of mitochondrial enzymes HMGCS2, BDH1 and PDK4. Targeting PPAR-γ and its downstream mitochondrial enzymes will provide novel strategies in preventing metabolic and myocardial dysfunction in diabetes mellitus., (© 2018 The Author(s). Published by S. Karger AG, Basel.)
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- 2018
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19. HMGCS2 is a key ketogenic enzyme potentially involved in type 1 diabetes with high cardiovascular risk.
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Shukla SK, Liu W, Sikder K, Addya S, Sarkar A, Wei Y, and Rafiq K
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- Animals, Cardiovascular Diseases diagnosis, Cardiovascular Diseases genetics, Cardiovascular Diseases physiopathology, Computational Biology methods, Diabetes Mellitus, Type 1 genetics, Echocardiography, Gene Expression Profiling, Gene Expression Regulation, Gene Regulatory Networks, Hemodynamics, Humans, Hydroxymethylglutaryl-CoA Synthase genetics, Male, Mice, Molecular Sequence Annotation, Transcriptome, Cardiovascular Diseases metabolism, Diabetes Mellitus, Type 1 metabolism, Hydroxymethylglutaryl-CoA Synthase metabolism, Ketone Bodies biosynthesis
- Abstract
Diabetes increases the risk of Cardio-vascular disease (CVD). CVD is more prevalent in type 2 diabetes (T2D) than type 1 diabetes (T1D), but the mortality risk is higher in T1D than in T2D. The pathophysiology of CVD in T1D is poorly defined. To learn more about biological pathways that are potentially involved in T1D with cardiac dysfunction, we sought to identify differentially expressed genes in the T1D heart. Our study used T1D mice with severe hyperglycemia along with significant deficits in echocardiographic measurements. Microarray analysis of heart tissue RNA revealed that the T1D mice differentially expressed 10 genes compared to control. Using Ingenuity Pathway Analysis (IPA), we showed that these genes were significantly involved in ketogenesis, cardiovascular disease, apoptosis and other toxicology functions. Of these 10 genes, the 3-Hydroxy-3-Methylglutaryl-CoA Synthase 2 (HMGCS2) was the highest upregulated gene in T1D heart. IPA analysis showed that HMGCS2 was center to many biological networks and pathways. Our data also suggested that apart from heart, the expression of HMGCS2 was also different in kidney and spleen between control and STZ treated mice. In conclusion, The HMGCS2 molecule may potentially be involved in T1D induced cardiac dysfunction.
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- 2017
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20. Gossypetin ameliorates ionizing radiation-induced oxidative stress in mice liver--a molecular approach.
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Khan A, Manna K, Das DK, Kesh SB, Sinha M, Das U, Biswas S, Sengupta A, Sikder K, Datta S, Ghosh M, Chakrabarty A, Banerji A, and Dey S
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- Alanine Transaminase blood, Alkaline Phosphatase blood, Animals, Antioxidants chemistry, Antioxidants pharmacology, Aspartate Aminotransferases blood, Biological Availability, Catalase metabolism, DNA Breaks, Double-Stranded, Drug Evaluation, Preclinical, Flavonoids chemistry, Flavonoids pharmacology, Free Radical Scavengers chemistry, Free Radical Scavengers pharmacology, Glutathione metabolism, Hepatocytes drug effects, Hepatocytes radiation effects, Interleukin-6 blood, Lipid Peroxidation drug effects, Lipid Peroxidation radiation effects, Liver radiation effects, Liver ultrastructure, Male, Mice, Molecular Structure, NF-E2-Related Factor 2 metabolism, Oxidation-Reduction, Oxidative Stress drug effects, Phosphatidylinositol 3-Kinases metabolism, Proto-Oncogene Proteins c-akt metabolism, Radiation-Protective Agents chemistry, Radiation-Protective Agents pharmacology, Signal Transduction drug effects, Superoxide Dismutase metabolism, Tumor Necrosis Factor-alpha blood, Antioxidants therapeutic use, Flavonoids therapeutic use, Free Radical Scavengers therapeutic use, Gamma Rays adverse effects, Liver drug effects, Radiation-Protective Agents therapeutic use
- Abstract
Radioprotective action of gossypetin (GTIN) against gamma (γ)-radiation-induced oxidative stress in liver was explored in the present article. Our main aim was to evaluate the protective efficacy of GTIN against radiation-induced alteration of liver in murine system. To evaluate the effect of GTIN, it was orally administered to mice at a dose of 30 mg/kg body weight for three consecutive days prior to γ-radiation at a dose of 5 Gy. Radioprotective efficacy of GTIN were evaluated at physiological, cellular, and molecular level using biochemical analysis, comet assay, flow cytometry, histopathology, immunofluorescence, and immunoblotting techniques. Ionizing radiation was responsible for augmentation of hepatic oxidative stress in terms of lipid peroxidation and depletion of endogenous antioxidant enzymes. Immunoblotting and immunofluorescence studies showed that irradiation enhanced the nuclear translocation of nuclear factor kappa B (NF-κB) level, which leads to hepatic inflammation. To investigate further, we found that radiation induced the activation of stress-activated protein kinase/c-Jun NH2-terminal kinase (SAPK/JNK)-mediated apoptotic pathway and deactivation of the NF-E2-related factor 2 (Nrf2)-mediated redox signaling pathway, whereas GTIN pretreatment ameliorated these radiation-mediated effects. This is the novel report where GTIN rationally validated the molecular mechanism in terms of the modulation of cellular signaling system' instead of ' This is the novel report where GTIN is rationally validated in molecular terms to establish it as promising radioprotective agents. This might be fruitful especially for nuclear workers and defense personnel assuming the possibility of radiation exposure.
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- 2015
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21. The high antioxidative power of quercetin (aglycone flavonoid) and its glycone (rutin) avert high cholesterol diet induced hepatotoxicity and inflammation in Swiss albino mice.
- Author
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Sikder K, Kesh SB, Das N, Manna K, and Dey S
- Subjects
- Animals, Apolipoprotein B-100 genetics, Apolipoprotein B-100 metabolism, Body Weight, C-Reactive Protein genetics, C-Reactive Protein metabolism, Cholesterol blood, Cholesterol, LDL blood, Gene Expression, Inflammation drug therapy, Interleukin-6 genetics, Interleukin-6 metabolism, Lipid Peroxidation drug effects, Liver metabolism, Male, Mice, NF-kappa B genetics, NF-kappa B metabolism, Nitric Oxide Synthase Type II genetics, Nitric Oxide Synthase Type II metabolism, Oxidative Stress drug effects, Phytochemicals pharmacology, Reactive Oxygen Species metabolism, Sterol Regulatory Element Binding Protein 2 genetics, Sterol Regulatory Element Binding Protein 2 metabolism, Triglycerides blood, Tumor Necrosis Factor-alpha genetics, Tumor Necrosis Factor-alpha metabolism, Antioxidants pharmacology, Cholesterol, Dietary administration & dosage, Diet, High-Fat, Liver drug effects, Quercetin pharmacology, Rutin pharmacology
- Abstract
The present study demonstrates for the first time the protective role of two common flavonoids, quercetin and its glycone rutin, against high cholesterol diet (2%) induced hepatotoxicity and inflammation. Swiss albino mice were given either a standard laboratory diet (control), high cholesterol diet (HCD) or high cholesterol diet along with quercetin or rutin (100 mg kg(-1) body weight) in their respective groups. The HCD mice exhibited a gain in body weight, significant rise in serum and hepatic level of total cholesterol, triglyceride, liver function enzymes, lipid peroxidation, and pro-inflammatory cytokines (P < 0.05). Histopathological studies showed hepatic fat accumulation and tissue disintegration. There was significant depletion of major hepatic antioxidants (P < 0.05). Immunoblot studies revealed a high expression of redox sensitive transcription factors NF-κB and TNF-α. A subsequent rise in the mRNA expression of inflammatory markers like C reactive protein and inducible nitric oxide synthase 2 were also found from the RT-PCR study. Simultaneous treatment with quercetin or rutin along with HCD significantly prevented the gains in body weight, lipid level, liver function enzymes, lipid peroxidation level and expression of inflammatory markers. The restoration of hepatic antioxidant homeostasis and hepatic morphology has also been observed. Hence, the present study illustrates the hypolipidemic, hepatoprotective and anti-inflammatory effects of two similar flavonoids.
- Published
- 2014
- Full Text
- View/download PDF
22. Quercetin and beta-sitosterol prevent high fat diet induced dyslipidemia and hepatotoxicity in Swiss albino mice.
- Author
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Sikder K, Das N, Kesh SB, and Dey S
- Subjects
- Animals, Antioxidants metabolism, Cardiovascular Diseases blood, Cardiovascular Diseases metabolism, Cardiovascular Diseases pathology, Diet, High-Fat, Dyslipidemias pathology, Lipid Peroxidation drug effects, Liver drug effects, Mice, Triglycerides blood, Dyslipidemias drug therapy, Lipids blood, Quercetin administration & dosage, Sitosterols administration & dosage
- Abstract
High fat diet group showed a significant rise in serum and hepatic total cholesterol, triglyceride and atherogenic index which are major biomarkers of dyslipidemia and cardiovascular risk. The liver function markers, lipid peroxidation and proinflammatory cytokine levels were elevated in high fat diet group whereas antioxidant levels significantly reduced. These findings manifest hepatic damage which was further confirmed by histological findings. Quercetin and beta-sitosterol though structurally different yet both ameliorate the sickening changes in different mechanism. The current investigation is perhaps the first report of the mechanistic role of two polyphenols over dyslipidemia and subsequent hepatotoxicity.
- Published
- 2014
23. Quercetin alleviates inflammation after short-term treatment in high-fat-fed mice.
- Author
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Das N, Sikder K, Bhattacharjee S, Majumdar SB, Ghosh S, Majumdar S, and Dey S
- Subjects
- Animals, Humans, Inflammation etiology, Inflammation genetics, Inflammation immunology, Liver immunology, Male, Mice, NF-kappa B genetics, NF-kappa B immunology, Diet, High-Fat adverse effects, Inflammation drug therapy, Moringa oleifera chemistry, Plant Extracts administration & dosage, Quercetin administration & dosage
- Abstract
Consumption of a high-fat diet (HFD) promotes reactive oxygen species (ROS) which ultimately trigger inflammation. The aim of this study was to investigate the role of Moringa oleifera leaf extract (MoLE) and its active component quercetin in preventing NF-κB-mediated inflammation raised by short-term HFD. Quercetin was found to be one of the major flavonoid components from HPLC of MoLE. Swiss mice were fed for 15 days on HFD, both with or without MoLE/quercetin. The antioxidant profile was estimated from liver homogenate. NF-κB and some relevant inflammatory markers were evaluated by immunoblotting, RT-PCR and ELISA. Significantly (P < 0.05) lower antioxidant profile and higher lipid peroxidation was found in HFD group compared to control (P < 0.05). Increased nuclear import of NF-κB and elevated expressions of pro-inflammatory markers were further manifestations in the HFD group. All these changes were reversed in the MoLE/quercetin-treated groups with significant improvement of antioxidant activity compared to the HFD group. MoLE was found to be rich in polyphenols and both MoLE and quercetin showed potent free radical and hydroxyl radical quenching activity. Thus, the present study concluded that short-term treatment with MoLE and its constituent quercetin prevent HFD-mediated inflammation in mice.
- Published
- 2013
- Full Text
- View/download PDF
24. Promising role of ferulic acid, atorvastatin and their combination in ameliorating high fat diet-induced stress in mice.
- Author
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Kesh SB, Sikder K, Manna K, Das DK, Khan A, Das N, and Dey S
- Subjects
- Animals, Antioxidants administration & dosage, Antioxidants pharmacology, Atorvastatin, Coumaric Acids administration & dosage, Diet, High-Fat, Drug Therapy, Combination, Free Radical Scavengers administration & dosage, Hepatocytes drug effects, Hepatocytes metabolism, Heptanoic Acids administration & dosage, Hydroxymethylglutaryl-CoA Reductase Inhibitors administration & dosage, Hyperlipidemias drug therapy, Hyperlipidemias etiology, Inflammation drug therapy, Inflammation etiology, Inflammation pathology, Interleukin-6 blood, Lipid Peroxidation drug effects, Liver drug effects, Liver metabolism, Male, Mice, NF-kappa B metabolism, Pyrroles administration & dosage, Reactive Oxygen Species metabolism, Signal Transduction drug effects, Tumor Necrosis Factor-alpha blood, Weight Gain drug effects, Coumaric Acids pharmacology, Free Radical Scavengers pharmacology, Heptanoic Acids pharmacology, Hydroxymethylglutaryl-CoA Reductase Inhibitors pharmacology, Oxidative Stress drug effects, Pyrroles pharmacology
- Abstract
Aims: The present study evaluated a comparative and combined hepatoprotective effect of atorvastatin (AS) and ferulic acid (F) against high fat diet (HFD) induced oxidative stress in terms of hyperlipidemia, anti-oxidative status, lipid peroxidation and inflammation., Main Methods: Male Swiss albino mice were given a diet containing high fat (H) (23.9% wt/wt), supplemented with AS (10mg/kg) or F (100mg/kg) and both (10 and 100mg/kg) for 8weeks. The control mice (C) were fed with normal diet., Key Findings: The H mice exhibited increased body weight; hyperlipidemia; serum level of tumor necrosis factor alpha (TNF-α), interleukin-6 (IL-6); hepatic lipid profile; lipid accumulation; reactive oxygen species (ROS) of hepatocytes, lipid peroxidation and liver antioxidant capacity was decreased. Immunofluorescent and Western blot assay revealed activation of nuclear factor kappa B (NF-κB) signaling pathway. The addition of F or AS and both in the diet significantly counteracted HFD induced body weight gain; hyperlipidemia; TNF-α, IL-6; hepatic lipid profile; fatty infiltration; NF-κB signaling pathway; ROS; lipid peroxidation and moreover elevated levels of hepatic antioxidant enzymes activity were observed., Significance: Simultaneous treatment with AS, F and their combination protected against HFD induced weight gain and oxidative stress. The protection may be attributed to the hypolipidemic and free radical scavenging activity of AS or F and their combination. This study illustrates that AS and F have relatively similar hypolipidemic, antioxidative, anti-inflammatory actions and the AS+F combination along with HFD has shown outstanding effects as compared to other treated groups., (Copyright © 2013 Elsevier Inc. All rights reserved.)
- Published
- 2013
- Full Text
- View/download PDF
25. Moringa oleifera Lam. leaf extract prevents early liver injury and restores antioxidant status in mice fed with high-fat diet.
- Author
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Das N, Sikder K, Ghosh S, Fromenty B, and Dey S
- Subjects
- Alanine Transaminase blood, Alkaline Phosphatase blood, Animals, Antioxidants metabolism, Aspartate Aminotransferases blood, Dose-Response Relationship, Drug, Free Radical Scavengers isolation & purification, Free Radical Scavengers pharmacology, Glutathione metabolism, Humans, Lipid Peroxidation drug effects, Liver drug effects, Liver metabolism, Liver pathology, Liver Diseases blood, Liver Diseases etiology, Male, Mice, Phytotherapy methods, Plant Extracts isolation & purification, Diet, High-Fat adverse effects, Liver Diseases prevention & control, Moringa oleifera chemistry, Plant Extracts pharmacology, Plant Leaves chemistry
- Abstract
Consumption of high-fat diet (HFD) induces nonalcoholic fatty liver disease (NAFLD) and may lead to multiple complications affecting human health. In the present study, effect of Moringa oleifera leaf extract (MoLE) in alleviating HFD induced liver injury in mice has been reported. Liver histology and serum activity of hepatic marker enzymes i.e. aspartate aminotransferase (AST), alanine aminotransferase (ALT) and alkaline phosphatase (ALP) have been studied. Lipid peroxidation (LPO), ferric reducing antioxidant power (FRAP) and reduced glutathione (GSH) were also estimated using liver homogenate. Results of the study suggested that MoLE treatment protected HFD-induced liver damage as indicated by histopathology and liver enzyme activity compared to only-HFD fed group (P < 0.05). Interestingly, early signs of HFD-induced fatty liver were also alleviated by MoLE. Moreover, significant increase in endogenous antioxidant parameters and lower lipid peroxidation were found in liver of all MoLE treated groups. Results of the study indicated that MoLE has both preventive as also curative hepatoprotective activity.
- Published
- 2012
26. Optimized protocols for the isolation of specific protein-binding peptides or peptoids from combinatorial libraries displayed on beads.
- Author
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Kodadek T and Bachhawat-Sikder K
- Subjects
- Chalcone, Combinatorial Chemistry Techniques methods, Kinetics, Ligands, Models, Molecular, Myelin Basic Protein chemistry, Peptides chemistry, Protein Binding, Peptide Library, Peptides isolation & purification
- Abstract
Many methods have been published by which combinatorial libraries may be screened for compounds capable of manipulating the function(s) of a target protein. One of the simplest approaches is to identify compounds in a library that bind the protein of interest, since these binding events usually occur on functionally important surfaces of the protein. These protein-binding compounds could also be of utility as protein capture agents in the construction of protein-detecting microarrays or related analytical devices and as reagents for the affinity purification of proteins from complex mixtures. In this article, we provide optimized methods for screening libraries of molecules displayed on the beads on which they were synthesized. This is a particularly convenient format for library screening for laboratories with limited budgets and modest robotics capabilities.
- Published
- 2006
- Full Text
- View/download PDF
27. Transformation of low-affinity lead compounds into high-affinity protein capture agents.
- Author
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Reddy MM, Bachhawat-Sikder K, and Kodadek T
- Subjects
- Amino Acid Sequence, Automation, Chalcone chemistry, HeLa Cells, Humans, Ligands, Molecular Sequence Data, Molecular Structure, Nuclear Proteins chemistry, Peptide Library, Protein Array Analysis, Protein Binding, Proto-Oncogene Proteins chemistry, Proto-Oncogene Proteins c-mdm2, Substrate Specificity, Ubiquitin chemistry, Drug Evaluation, Preclinical methods, Nuclear Proteins metabolism, Proto-Oncogene Proteins metabolism, Ubiquitin metabolism
- Abstract
A simple and potentially general approach to the isolation of high-affinity and -specificity protein binding synthetic molecules is presented. A modest affinity lead compound is appended to the end of each molecule in a combinatorial library of oligomeric compounds, such as peptides or peptoids. The library is then screened under conditions too demanding for the lead to support robust binding to the protein target. It was anticipated that this procedure would select for bivalent ligands in which the oligomer library provides both a second binding element as well as an appropriate linker between this element and the lead compound. We report here synthetic ligands for the Mdm2 protein and ubiquitin able to capture their target proteins from dilute solutions in the presence of a large excess of other proteins.
- Published
- 2004
- Full Text
- View/download PDF
28. Thermodynamic characterization of monomeric and dimeric forms of CcdB (controller of cell division or death B protein).
- Author
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Bajaj K, Chakshusmathi G, Bachhawat-Sikder K, Surolia A, and Varadarajan R
- Subjects
- Dimerization, Escherichia coli Proteins chemistry, Hot Temperature, Hydrogen-Ion Concentration, Protein Denaturation, Protein Folding, Protein Structure, Secondary, Protein Structure, Tertiary, Bacterial Proteins chemistry, Bacterial Toxins chemistry, Thermodynamics
- Abstract
The protein CcdB (controller of cell division or death B) is an F-plasmid-encoded toxin that acts as an inhibitor of Escherichia coli DNA gyrase. The stability and aggregation state of CcdB have been characterized as a function of pH and temperature. Size-exclusion chromatography revealed that the protein is a dimer at pH 7.0, but a monomer at pH 4.0. CD analysis and fluorescence spectroscopy showed that the monomer is well folded, and has similar tertiary structure to the dimer. Hence intersubunit interactions are not required for folding of individual subunits. The stability of both forms was characterized by isothermal denaturant unfolding and calorimetry. The free energies of unfolding were found to be 9.2 kcal x mol(-1) (1 cal approximately 4.184 J) and 21 kcal x mol(-1) at 298 K for the monomer and dimer respectively. The denaturant concentration at which one-half of the protein molecules are unfolded (C(m)) of the dimer is dependent on protein concentration, whereas the C(m) of the monomer is independent of protein concentration, as expected. Although thermal unfolding of the protein in aqueous solution is irreversible at neutral pH, it was found that thermal unfolding is reversible in the presence of GdmCl (guanidinium chloride). Differential scanning calorimetry in the presence of low concentrations of GdmCl in combination with isothermal denaturation melts as a function of temperature were used to derive the stability curve for the protein. The value of Delta C (p) (representing the change in excess heat capacity upon protein denaturation) is 2.8+/-0.2 kcal x mol(-1) x K(-1) for unfolding of dimeric CcdB, and only has a weak dependence on denaturant concentration.
- Published
- 2004
- Full Text
- View/download PDF
29. Isolation of protein ligands from large peptoid libraries.
- Author
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Alluri PG, Reddy MM, Bachhawat-Sikder K, Olivos HJ, and Kodadek T
- Subjects
- Amines isolation & purification, Amines metabolism, Chromatography, High Pressure Liquid, Ligands, Peptoids chemical synthesis, Peptoids isolation & purification, Peptoids metabolism, Protein Binding, Proto-Oncogene Proteins chemistry, Proto-Oncogene Proteins metabolism, Proto-Oncogene Proteins c-mdm2, Amines chemistry, Nuclear Proteins, Peptide Library, Peptoids chemistry
- Abstract
The isolation of ligands for large numbers of proteins is an important goal in proteomics. Whereas peptide libraries are rich sources of protein-binding molecules, native peptides have certain undesirable properties, such as sensitivity to proteases that make them less than ideal for some applications. We report here the construction and characterization of large, chemically diverse combinatorial libraries of peptoids (N-substituted oligoglycines). A protocol for the isolation of specific protein-binding molecules from these libraries is described. These data suggest that peptoid libraries will prove to be inexpensive and convenient sources of protein ligands.
- Published
- 2003
- Full Text
- View/download PDF
30. Quantum dots as a visual aid for screening bead-bound combinatorial libraries.
- Author
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Olivos HJ, Bachhawat-Sikder K, and Kodadek T
- Subjects
- Biotinylation, Ligands, Microspheres, Spectrometry, Fluorescence, Substrate Specificity, Combinatorial Chemistry Techniques, Peptide Library, Quantum Dots, Ubiquitin chemistry
- Published
- 2003
- Full Text
- View/download PDF
31. Mixed-element capture agents: a simple strategy for the construction of synthetic, high-affinity protein capture ligands.
- Author
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Bachhawat-Sikder K and Kodadek T
- Subjects
- Carrier Proteins genetics, Carrier Proteins metabolism, Kinetics, Ligands, Maltose-Binding Proteins, Protein Binding, Proto-Oncogene Proteins genetics, Proto-Oncogene Proteins metabolism, Proto-Oncogene Proteins c-mdm2, Recombinant Fusion Proteins genetics, Recombinant Fusion Proteins metabolism, Carrier Proteins chemistry, Nuclear Proteins, Proteomics methods, Proto-Oncogene Proteins chemistry, Recombinant Fusion Proteins chemistry
- Abstract
Demonstration of a simple strategy to generate synthetic high-affinity protein capture agents of practical utility for protein-detecting microarrays. The model study highlights capture of the MBP-Mdm2 fusion protein on a solid support by a linear sequence of peptides that bind to the two individual polypeptide chains.
- Published
- 2003
- Full Text
- View/download PDF
32. Exploring kinetics and mechanism of protein-sugar recognition by surface plasmon resonance.
- Author
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Kapoor M, Thomas CJ, Bachhawat-Sikder K, Sharma S, and Surolia A
- Subjects
- Carbohydrates chemistry, Kinetics, Protein Binding, Proteins chemistry, Thermodynamics, Carbohydrate Metabolism, Proteins metabolism
- Published
- 2003
- Full Text
- View/download PDF
33. Mutational analysis at Asn-41 in peanut agglutinin. A residue critical for the binding of the tumor-associated Thomsen-Friedenreich antigen.
- Author
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Adhikari P, Bachhawat-Sikder K, Thomas CJ, Ravishankar R, Jeyaprakash AA, Sharma V, Vijayan M, and Surolia A
- Subjects
- Asparagine chemistry, Asparagine metabolism, Base Sequence, Carbohydrate Metabolism, Hydrogen Bonding, Models, Molecular, Molecular Sequence Data, Mutagenesis, Site-Directed, Peanut Agglutinin chemistry, Peanut Agglutinin metabolism, Peptide Nucleic Acids, Antigens, Tumor-Associated, Carbohydrate metabolism, Asparagine genetics, Peanut Agglutinin genetics
- Abstract
Peanut agglutinin is a clinically important lectin due to its application in the screening of mature and immature thymocytes as well as in the detection of cancerous malignancies. The basis for these applications is the remarkably strong affinity of the lectin for the tumor-associated Thomsen-Friedenreich antigen (T-antigen) and more so due to its ability to distinguish T-antigen from its cryptic forms. The crystal structure of the complex of peanut agglutinin with T-antigen reveals the basis of this specificity. Among the contacts involved in providing this specificity toward T-antigen is the water-mediated interaction between the side chain of Asn-41 and the carbonyl oxygen of the acetamido group of the second hexopyranose ring of the sugar molecule. Site-directed mutational changes were introduced at this residue with the objective of probing the role of this residue in T-antigen binding and possibly engineering an altered species with increased specificity for T-antigen. Of the three mutants tested, i.e. N41A, N41D, and N41Q, the last one shows improved potency for recognition of T-antigen. The affinities of the mutants can be readily explained on the basis of the crystal structure of the complex and simple modeling. In particular, the change of asparagine to glutamine could lead to a direct interaction of the side chain with the sugar while at the same time retaining the water bridge. This study strengthens the theory that in lectins the nonprimary contacts generally made through water bridges are involved in imparting exquisite specificity.
- Published
- 2001
- Full Text
- View/download PDF
34. Thermodynamic analysis of the binding of galactose and poly-N-acetyllactosamine derivatives to human galectin-3.
- Author
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Bachhawat-Sikder K, Thomas CJ, and Surolia A
- Subjects
- Antigens, Differentiation metabolism, Binding Sites, Calorimetry, Galactose metabolism, Galectin 3, Humans, Polysaccharides metabolism, Thermodynamics, Antigens, Differentiation chemistry, Galactose chemistry, Polysaccharides chemistry
- Abstract
Galectin-3, with a wide tissue distribution and marked developmental regulation, provides significant insights into the progression of various disease and developmental stages. Recognized by its specificity for galactose, a detailed characterization of its sugar binding ability has been investigated by isothermal titration calorimetry. The results presented here complement well with the earlier studies utilizing hapten inhibition assays. Among the various lactose derivatives studied, A-tetrasaccharide emerged with the highest affinity for binding to galectin-3 combining site. This blood group saccharide exhibited a binding affinity 37-fold higher and a 102 kJ/mol more favorable change in enthalpy over lactose at 280 K indicating the existence of additional subsites for both the alpha1-3-linked N-acetylgalactosamine at the non-reducing end and the alpha1-2-linked L-fucosyl residue. The thermodynamic parameters evaluated for other ligands substantiate further the carbohydrate recognition domain to be part of an extended binding site. Binding thermodynamics of galectin-3 with the galactose derivatives are essentially enthalpically driven and exhibit compensatory changes in DeltaH degrees and TDeltaS owing to solvent reorganization.
- Published
- 2001
- Full Text
- View/download PDF
35. Expression of winged bean basic agglutinin in Spodoptera frugiperda insect cell expression system.
- Author
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Srinivas VR, Bachhawat-Sikder K, Habib S, Hasnain SE, and Surolia A
- Subjects
- Animals, Binding Sites genetics, Carbohydrate Metabolism, Cells, Cultured, Dimerization, Genetic Engineering methods, Glycosylation, Lectins metabolism, Molecular Weight, Promoter Regions, Genetic physiology, Protein Binding genetics, Recombinant Fusion Proteins genetics, Spodoptera metabolism, Transfection, Baculoviridae genetics, Eukaryotic Cells metabolism, Gene Expression Regulation, Plant physiology, Genetic Vectors, Lectins genetics, Plant Lectins, Spodoptera genetics
- Abstract
In this paper we report the successful expression of the winged bean basic agglutinin (WBA I) in insect cells infected with a recombinant baculovirus carrying the WBA I gene and its characterization in terms of its carbohydrate binding properties. The expressed protein appears to have a lower molecular weight than the native counterpart which is consistent with the lack of glycosylation of the former. Moreover, the expressed protein maintains its dimeric nature. Hence, a role for glycosylation in modulation of dimerization of WBA I is ruled out unlike Erythrina corallodendron (EcorL). Despite this the protein is active, with its sugar specificity unaltered.
- Published
- 2001
- Full Text
- View/download PDF
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