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Vatsal VH, Jha BK, Singh TP. Generalised Neuronal Calcium Dynamics of Membrane and ER in the Polar Dimension. Cell Biochem Biophys 2024:10.1007/s12013-024-01425-3. [PMID: 39106022 DOI: 10.1007/s12013-024-01425-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 07/10/2024] [Indexed: 08/07/2024]
Abstract
Calcium ions are the second messenger playing as regulators for various cellular activities. Its spatiotemporal control is critical for various brain functions, including neuroplasticity, apoptosis, and cell death. The Endoplasmic Reticulum (ER) plays an important role in determining these spatiotemporal calcium dynamics. Stromal interaction molecule (STIM) - Orai channel on the membrane generates additional calcium flow, whereas other membrane fluxes contribute to cytosolic flux. Due to their anomalous character, we used the Caputo fractional differential operator to mimic these interactions in polar coordinates. Solutions were generated using hybrid integral transform methods to control the analytical approach. Using Green's function yielded a closed-form solution for Mittag-Leffler-type functions. This work emphasizes the significant relationship between calcium and various buffer levels in neurons. The differential transition simulation of a time derivative with space across different parameters indicated a decrease in calcium concentration. Anomalously low buffer levels exhibited the impact of Alzheimer's disease on calcium higher concentration, leading to the death of neurons. Additionally, the research introduces a method involving S100B, BAPTA, and calmodulin buffers to uphold optimal calcium levels within the neuronal cytosol. The applicability of this model with different buffer properties and parameters and memory impacts the calcium concentration with the neurological disorder.
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Affiliation(s)
- Vora Hardagna Vatsal
- Department of Mathematics, School of Technology, Pandit Deendayal Energy University, Gandhinagar, Gujarat, India
| | - Brajesh Kumar Jha
- Department of Mathematics, School of Technology, Pandit Deendayal Energy University, Gandhinagar, Gujarat, India.
| | - Tajinder Pal Singh
- Department of Mathematics, School of Technology, Pandit Deendayal Energy University, Gandhinagar, Gujarat, India
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2
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Vaishali, Adlakha N. Modelling spatio-temporal interactions between second messengers Ca 2 + and cAMP in a pancreatic β -cell. J Bioenerg Biomembr 2024; 56:389-404. [PMID: 38771496 DOI: 10.1007/s10863-024-10021-2] [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: 02/13/2024] [Accepted: 05/06/2024] [Indexed: 05/22/2024]
Abstract
Calcium serves as a widespread second messenger in almost every human and animal cell. The regulation of various cellular processes, such as transcriptional control and the kinetics of membrane channels, is significantly influenced by intracellular calcium ions (Ca2 + ), and linkages between Ca2 + and other second messengers should activate signaling networks. The passage of ions across the cell membrane regulates Ca2 + levels in pancreatic β -cells and requires the coordinated interaction of various ion transport mechanisms and organelles. The signaling of Ca2 + in β -cells and its interactions with the intracellular dynamics of cyclic adenosine monophosphate (cAMP) is poorly understood. Therefore, the current investigation proposes a mathematical model to illustrate the spatiotemporal dynamical interaction between Ca2 + and cAMP. In order to construct a one-dimensional mathematical model, the fundamental initial and boundary conditions derived from the physiological characteristics of the β -cell are incorporated. The numerical results were obtained by MATLAB simulations using the finite element method and the Crank-Nicolson method. The current study aims to offer an update on regulation between Ca2 + and cAMP signaling circuits, with a focus on interactions that occur in localized areas of the β -cell. The model gives the individual effect of each parameter on the regulation of Ca2 + and cAMP profiles in a β -cell. Evidently, impairments in the regulation of messenger pathways contribute to the pathological conditions, as demonstrated by the results obtained.
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Affiliation(s)
- Vaishali
- Department of Mathematics, SVNIT, Surat, 395007, Gujarat, India.
| | - Neeru Adlakha
- Department of Mathematics, SVNIT, Surat, 395007, Gujarat, India
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3
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Mishra V, Adlakha N. Cross Talking Calcium, IP 3 and Buffer Dynamics Alters ATP and NADH Level in Obese and Normal Hepatocyte Cell. Cell Biochem Biophys 2024; 82:1537-1553. [PMID: 38789660 DOI: 10.1007/s12013-024-01306-9] [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] [Accepted: 05/08/2024] [Indexed: 05/26/2024]
Abstract
The cross talk between calcium (Ca2+), IP3 and buffer dynamics regulate various mechanisms in hepatocyte cells. The study of independent systems of calcium, IP3, and buffer signaling provides limited information about cell dynamics. In the current study, coupled reaction-diffusion equations are used to design a cross-talk model for IP3, buffer, and calcium dynamics in a hepatocyte cell. The one-way feedback of calcium, buffer, and IP3 in ATP production, ATP degradation, and NADH production rate is incorporated into the model. Numerical simulation has been done using the Finite Element Method (FEM) along the spatial direction and the Crank-Nicolson (C-N) method along the temporal direction. The numerical results are analysed to determine the effects of alterations in processes of cross-talking dynamics of IP3, buffer, and calcium on ATP and NADH production and degradation rate of ATP in a hepatocyte cell under normal and obesity conditions. The comparative analysis of these findings unveils notable distinctions induced by obesity in calcium dynamics, ATP and NADH synthesis, and ATP degradation kinetics.
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Affiliation(s)
- Vedika Mishra
- Department of Mathematics, SVNIT, Surat, 395007, Gujarat, India.
| | - Neeru Adlakha
- Department of Mathematics, SVNIT, Surat, 395007, Gujarat, India
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4
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Kothiya A, Adlakha N. Regulatory disturbances in the dynamical signaling systems of C a 2 + and NO in fibroblasts cause fibrotic disorders. J Biol Phys 2024; 50:229-251. [PMID: 38753214 PMCID: PMC11106231 DOI: 10.1007/s10867-024-09657-3] [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: 06/25/2023] [Accepted: 04/16/2024] [Indexed: 05/21/2024] Open
Abstract
Studying the calcium dynamics within a fibroblast cell individually has provided only a restricted understanding of its functions. However, research efforts focusing on systems biology approaches for such investigations have been largely neglected by researchers until now. Fibroblast cells rely on signaling from calcium ( C a 2 + ) and nitric oxide (NO) to maintain their physiological functions and structural stability. Various studies have demonstrated the correlation between NO and the control of C a 2 + dynamics in cells. However, there is currently no existing model to assess the disruptions caused by various factors in regulatory dynamics, potentially resulting in diverse fibrotic disorders. A mathematical model has been developed to investigate the effects of changes in parameters such as buffer, receptor, sarcoplasmic endoplasmic reticulum C a 2 + -ATPase (SERCA) pump, and source influx on the regulation and dysregulation of spatiotemporal calcium and NO dynamics in fibroblast cells. This model is based on a system of reaction-diffusion equations, and numerical simulations are conducted using the finite element method. Disturbances in key processes related to calcium and nitric oxide, including source influx, buffer mechanism, SERCA pump, and inositol trisphosphate ( I P 3 ) receptor, may contribute to deregulation in the calcium and NO dynamics within fibroblasts. The findings also provide new insights into the extent and severity of disorders resulting from alterations in various parameters, potentially leading to deregulation and the development of fibrotic disease.
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Affiliation(s)
- Ankit Kothiya
- DoM, Sardar Vallabhbhai National Institute of Technology, Surat, 395007, Gujarat, India.
| | - Neeru Adlakha
- DoM, Sardar Vallabhbhai National Institute of Technology, Surat, 395007, Gujarat, India
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5
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Jha BK, Bhattacharyya R. A Comprehensive Fuzzy Model for Understanding Neuronal Calcium Distribution in Presence of VGCC, Na +/Ca 2+ Exchanger, Buffer, and ER Fluxes. Cell Biochem Biophys 2024; 82:1367-1379. [PMID: 38743137 DOI: 10.1007/s12013-024-01291-z] [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] [Accepted: 04/20/2024] [Indexed: 05/16/2024]
Abstract
Free Calcium ions in the cytosol are essential for many physiological and physical functions. The free calcium ions are commonly regarded as a second messenger, are an essential part of brain communication. Numerous physiological activities, such as calcium buffering and calcium ion channel flow, etc. influence the cytosolic calcium concentration. In light of the above, the primary goal of this study is to develop a model of calcium distribution in neuron cells when a Voltage-Gated Calcium Channel and Sodium Calcium Exchanger are present. As we know, decreased buffer levels and increased calcium activity in the Voltage-Gated Calcium Channel and Sodium Calcium Exchanger lead to Alzheimer's disease. Due to these changes, the calcium diffusion in that location becomes disrupted and impacted by Alzheimer's disease. The model has been constructed by considering key factors like buffers and ER fluxes when Voltage-Gated Calcium Channels and Sodium Calcium Exchangers are present. Based on the physiological conditions of the parameters, appropriate boundary conditions have been constructed in the fuzzy environment. This model is considered a fuzzy boundary value problem with the source term and initial boundary conditions are modeled by triangular fuzzy functions. In this, paper we observed the approximate solution of the mathematical model which was investigated by the fuzzy undetermined coefficient method. The solution has been performed through MATLAB and numerical results have been computed using simulation. The observation made that the proper operation of the Voltage-Gated Calcium Channel and Sodium Calcium Exchanger is critical for maintaining the delicate equilibrium of calcium ions, which regulates vital cellular activities. Dysregulation of Voltage-Gated Calcium Channel and Sodium Calcium Exchanger activity has been linked to neurodegenerative illnesses like Alzheimer's disease.
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Affiliation(s)
- Brajesh Kumar Jha
- Department of Mathematics, School of Technology, Pandit Deendayal Energy University, Raisan, Gandhinagar, Gujarat, 382007, India.
| | - Rituparna Bhattacharyya
- Department of Mathematics, School of Technology, Pandit Deendayal Energy University, Raisan, Gandhinagar, Gujarat, 382007, India.
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6
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Pawar A, Pardasani KR. Study of disorders in regulatory spatiotemporal neurodynamics of calcium and nitric oxide. Cogn Neurodyn 2023; 17:1661-1682. [PMID: 37974582 PMCID: PMC10640555 DOI: 10.1007/s11571-022-09902-2] [Citation(s) in RCA: 9] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2022] [Revised: 09/26/2022] [Accepted: 10/14/2022] [Indexed: 11/10/2022] Open
Abstract
Experimental studies have reported the dependence of nitric oxide (NO) on the regulation of neuronal calcium ([Ca2+]) dynamics in neurons. But, there is no model available to estimate the disorders caused by various parameters in their regulatory dynamics leading to various neuronal disorders. A mathematical model to analyze the impacts due to alterations in various parameters like buffer, ryanodine receptor, serca pump, source influx, etc. leading to regulation and dysregulation of the spatiotemporal calcium and NO dynamics in neuron cells is constructed using a system of reaction-diffusion equations. The numerical simulation is performed with the finite element approach. The disturbances in the different constitutive processes of [Ca2+] and nitric oxide including source influx, buffer mechanism, ryanodine receptor, serca pump, IP3 receptor, etc. can be responsible for the dysregulation in the [Ca2+] and NO dynamics in neurons. Also, the results reveal novel information about the magnitude and intensity of disorders in response to a range of alterations in various parameters of this neuronal dynamics, which can cause dysregulation leading to neuronal diseases like Parkinson's, cerebral ischemia, trauma, etc.
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Affiliation(s)
- Anand Pawar
- Department of Mathematics, Bioinformatics and Computer Applications, Maulana Azad National Institute of Technology, Bhopal, Madhya Pradesh 462003 India
| | - Kamal Raj Pardasani
- Department of Mathematics, Bioinformatics and Computer Applications, Maulana Azad National Institute of Technology, Bhopal, Madhya Pradesh 462003 India
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7
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Kothiya A, Adlakha N. Simulation of biochemical dynamics of [Formula: see text] and [Formula: see text] in fibroblast cell. J Bioenerg Biomembr 2023; 55:267-287. [PMID: 37493888 DOI: 10.1007/s10863-023-09976-5] [Citation(s) in RCA: 8] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2023] [Accepted: 07/06/2023] [Indexed: 07/27/2023]
Abstract
Calcium dynamics is not only responsible for maintaining the framework and functions of the cell but also plays a role in the dynamics of other biochemical systems in the cell. Phospholipase C-[Formula: see text] l ([Formula: see text]) has a crucial role in the function of fibroblast cells. Experiments have shown that [Formula: see text] and [Formula: see text] have interdependent dynamics in fibroblast cells. However, no reaction-diffusion model exists for the two-way feedback system dynamics of [Formula: see text] and [Formula: see text] in fibroblasts till date. The computational model is designed to investigate the impact of variations in several processes, such as the [Formula: see text] pump, buffer process, source inflow, etc., on the system dynamics of [Formula: see text] and [Formula: see text] in fibroblast cells. The computational findings are obtained using finite element techniques, and the consequences of dysregulation in various processes on the spatiotemporal calcium and [Formula: see text] dynamics in fibroblasts are investigated. The results lead to the conclusion that the effects of buffer, source influx, diffusion, and [Formula: see text] pump can cause fluctuations in the dynamics of [Formula: see text] and [Formula: see text] in fibroblasts. Disruptions in these constitutive processes can result in changes in the dynamics of calcium and [Formula: see text]. Thus, the current model provides new/novel information regarding the precise dysregulatory constitutive systems that regulate calcium and [Formula: see text] kinetics, such as source inflow, diffusion, [Formula: see text], and buffer, can be responsible for excessive calcium and [Formula: see text] concentrations leading to fibrotic illnesses such as cancer and fibrosis.
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Affiliation(s)
- Ankit Kothiya
- DoMH, S. V. National Institute of Technology, Surat, 395007, Gujarat, India.
| | - Neeru Adlakha
- DoMH, S. V. National Institute of Technology, Surat, 395007, Gujarat, India
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8
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Kothiya AB, Adlakha N. Cellular nitric oxide synthesis is affected by disorders in the interdependent [Formula: see text] and [Formula: see text] dynamics during cystic fibrosis disease. J Biol Phys 2023; 49:133-158. [PMID: 36811722 PMCID: PMC10160313 DOI: 10.1007/s10867-022-09624-w] [Citation(s) in RCA: 7] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2022] [Accepted: 12/27/2022] [Indexed: 02/24/2023] Open
Abstract
Calcium ([Formula: see text]), inositol trisphosphate ([Formula: see text]), and nitric oxide (NO) signaling are essential to maintain the structural integrity and physiological activity of fibroblast cells. The accumulation of excess quantity of NO for longer periods can lead to a variety of fibrotic disorders, including heart disease, penile fibrosis in Peyronie's disease (PD), and cystic fibrosis. The dynamics of these three signaling processes and their interdependence in fibroblast cells are not clearly known to date. A systems biology model is proposed using reaction-diffusion equations for calcium, [Formula: see text], and calcium-dependent NO synthesis in fibroblast cells. The finite element method (FEM) is used to examine [Formula: see text], [Formula: see text], and NO regulation and dysregulation in cells. The results throw light on the conditions that disturb the coupled [Formula: see text] and [Formula: see text] dynamics and the influence of these factors on the levels of NO concentration in the fibroblast cell. The findings suggest that changes in source inflow, buffers, and diffusion coefficient might induce an increase or reduction in nitric oxide and [Formula: see text] synthesis, resulting in fibroblast cell diseases. Furthermore, the findings provide new information regarding the size and intensity of diseases in response to changes in several factors of their dynamics, which has been linked to the development of cystic fibrosis and cancer. This knowledge could be valuable for developing novel approaches to the diagnosis of diseases and therapies for various disorders of fibroblast cells.
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9
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Pawar A, Pardasani KR. Mechanistic insights of neuronal calcium and IP 3 signaling system regulating ATP release during ischemia in progression of Alzheimer's disease. EUROPEAN BIOPHYSICS JOURNAL : EBJ 2023:10.1007/s00249-023-01660-1. [PMID: 37222773 DOI: 10.1007/s00249-023-01660-1] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Received: 12/05/2022] [Revised: 03/21/2023] [Accepted: 05/10/2023] [Indexed: 05/25/2023]
Abstract
The mechanisms of calcium ([Ca2+]) signaling in various human cells have been widely analyzed by scientists due to its crucial role in human organs like the heartbeat, muscle contractions, bone activity, brain functionality, etc. No study is reported for interdependent [Ca2+] and IP3 mechanics regulating the release of ATP in neuron cells during Ischemia in Alzheimer's disease advancement. In the present investigation, a finite element method (FEM) is framed to explore the interdependence of spatiotemporal [Ca2+] and IP3 signaling mechanics and its role in ATP release during Ischemia as well as in the advancement of Alzheimer's disorder in neuron cells. The results provide us insights of the mutual spatiotemporal impacts of [Ca2+] and IP3 mechanics as well as their contributions to ATP release during Ischemia in neuron cells. The results obtained for the mechanics of interdependent systems differ significantly from the results of simple independent system mechanics and provide new information about the processes of the two systems. From this study, it is concluded that neuronal disorders cannot only be simply attributed to the disturbance caused directly in the processes of calcium signaling mechanics, but also to the disturbances caused in IP3 regulation mechanisms impacting the calcium regulation in the neuron cell and ATP release.
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Affiliation(s)
- Anand Pawar
- Department of Mathematics, Bioinformatics and Computer Applications, Maulana Azad National Institute of Technology, Bhopal, Madhya Pradesh, 462003, India.
| | - Kamal Raj Pardasani
- Department of Mathematics, Bioinformatics and Computer Applications, Maulana Azad National Institute of Technology, Bhopal, Madhya Pradesh, 462003, India
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10
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Pawar A, Pardasani KR. Effect of disturbances in neuronal calcium and IP3 dynamics on β-amyloid production and degradation. Cogn Neurodyn 2023; 17:239-256. [PMID: 36704637 PMCID: PMC9871154 DOI: 10.1007/s11571-022-09815-0] [Citation(s) in RCA: 11] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2022] [Revised: 04/12/2022] [Accepted: 04/21/2022] [Indexed: 01/29/2023] Open
Abstract
Overproduction and accumulation of β-amyloid and its improper clearance can cause neurotoxicity leading to Alzheimer's disease. The production and degradation of β-amyloid depend on the calcium ([Ca2+]) and IP3 dynamics in the nerve cells. Thus, there is a need to understand the impacts of disturbances in the processes of [Ca2+] and IP3 dynamics on β-amyloid production and its degradation. Here, a model is proposed to investigate the role of [Ca2+] and IP3 dynamics on β-amyloid production and degradation. The problem is formulated in terms of the initial boundary value problem involving the system of two reaction-diffusion equations respectively for [Ca2+] and IP3 in the nerve cell. The solution is obtained by employing the Finite element approach. The numerical results are used to analyze the impact of various mechanisms of calcium and IP3 dynamics on β-amyloid production and degradation in a neuron cell. The results indicate that disturbances in any of the constitutive processes of interdependent calcium and IP3 dynamics like source influx, buffering, serca pump, and IP3 dynamics, etc. can cause dynamic changes in β-amyloid production and degradation, which in turn can be the cause of neurotoxicity and neuronal disorders like Alzheimer's disease. Thus, the relationships obtained by the proposed model among various mechanisms can be useful in addressing the challenges of identifying specific constitutive processes causing neuronal disorders like Alzheimer's disease, etc., and developing the framework for their diagnosis and treatment.
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Affiliation(s)
- Anand Pawar
- Department of Mathematics, Bioinformatics, and Computer Applications, MANIT, Bhopal, Madhya Pradesh 462003 India
| | - Kamal Raj Pardasani
- Department of Mathematics, Bioinformatics, and Computer Applications, MANIT, Bhopal, Madhya Pradesh 462003 India
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11
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Dave DD, Jha BK. Mathematical Modeling of Calcium Oscillatory Patterns in a Neuron. Interdiscip Sci 2020; 13:12-24. [PMID: 33170431 DOI: 10.1007/s12539-020-00401-8] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2020] [Revised: 10/21/2020] [Accepted: 10/24/2020] [Indexed: 12/01/2022]
Abstract
Calcium oscillations are an imperative mode of signaling phenomenon. These oscillations are due to the active interactions taking place between some of the parameters like voltage gated calcium channels (VGCC), sodium calcium exchanger (NCX), calcium binding buffers, endoplasmic reticulum (ER) and mitochondria. The present paper focuses on the problem of higher level of calcium concentration in neurons which may further result into Alzheimer's Disease (AD). For this, a three-dimensional mathematical model having a system of differential equations depicting the changes in cytosolic calcium (in presence of buffers, VGCC and NCX), ER calcium and mitochondrial calcium, is formulated. A three-dimensional neuronal structure is targeted as the domain which is further discussed and solved using finite element technique in Comsol Multiphysics 5.4. Apposite boundary conditions matching well with the in-situ conditions are assumed. The obtained results clearly show the significance of the lower amount of the buffer and higher calcium mediated activities of VGCC, NCX, ER and mitochondria on calcium profile. These changes may lead to AD. To transit from AD condition to normal, exogenous buffers are added to check their significance. The results thus show that the replenishment of buffer may balance the amount of cell calcium and hence can affect positively on Alzheimer's affected cells.
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Affiliation(s)
- Devanshi D Dave
- Department of Mathematics, School of Technology, PDPU, Gandhinagar, 382007, Gujarat, India.
| | - Brajesh Kumar Jha
- Department of Mathematics, School of Technology, PDPU, Gandhinagar, 382007, Gujarat, India
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12
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Naik PA. Modeling the mechanics of calcium regulation in T lymphocyte: A finite element method approach. INT J BIOMATH 2020. [DOI: 10.1142/s1793524520500382] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
Abstract
Changes in cellular Ca[Formula: see text] concentration control a variety of physiological activities including hormone and neurotransmitter release, muscular contraction, synaptic plasticity, ionic channel permeability, apoptosis, enzyme activity, gene transcription and reproduction process. Spatial–temporal Ca[Formula: see text] dynamics due to Ca[Formula: see text] release, buffering and re-uptaking plays a central role in studying the Ca[Formula: see text] regulation in T lymphocytes. In most cases, Ca[Formula: see text] has its major signaling function when it is elevated in the cytosolic compartment. In this paper, a two-dimensional mathematical model to study spatiotemporal variations of intracellular Ca[Formula: see text] concentration in T lymphocyte cell is proposed and investigated. The cell is assumed to be a circular shaped geometrical domain for the representation of properties of Ca[Formula: see text] dynamics within the cell including important parameters. Ca[Formula: see text] binding proteins for the dynamics of Ca[Formula: see text] are itself buffer and other physiological parameters located in Ca[Formula: see text] stores. The model incorporates the important biophysical processes like diffusion, reaction, voltage-gated Ca[Formula: see text] channel, leak from endoplasmic reticulum (ER), efflux from cytosol to ER via sarco–ER Ca[Formula: see text] adenosine triphosphate (SERCA) pumps, buffers and Na[Formula: see text] exchanger. The proposed mathematical model is solved using a finite difference method and the finite element method. Appropriate initial and boundary conditions are incorporated in the model based on biophysical conditions of the problem. Computer simulations in MATLAB R2019b are employed to investigate mathematical models of reaction–diffusion equation. The effect of source, buffer, Na[Formula: see text]/Ca[Formula: see text] exchanger, etc. on spatial and temporal patterns of Ca[Formula: see text] in T lymphocyte has been studied with the help of numerical results. From the obtained results, it is observed that, the coordinated combination of the incorporated parameters plays a significant role in Ca[Formula: see text] regulation in T lymphocytes. ER leak and voltage-gated Ca[Formula: see text] channel provides the necessary Ca[Formula: see text] to the cell when required for its proper functioning, while on the other side buffers, SERCA pump and Na[Formula: see text]/Ca[Formula: see text] exchanger makes balance in the Ca[Formula: see text] concentration, so as to prevent the cell from death as higher concentration for longer time is harmful for the cell and can cause cell death.
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Affiliation(s)
- Parvaiz Ahmad Naik
- School of Mathematics and Statistics, Xi’an Jiaotong University, Xi’an, Shaanxi 710049, P. R. China
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13
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Naik PA, Zu J. Modeling and simulation of spatial-temporal calcium distribution in T lymphocyte cell by using a reaction-diffusion equation. J Bioinform Comput Biol 2020; 18:2050013. [PMID: 32372713 DOI: 10.1142/s0219720020500134] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
Abstract
T lymphocytes are white blood cells that play a central role in cell-mediated immunity. Ca2+ has its major signaling function when it is elevated in the cytosolic compartment. The free cytosolic Ca2+ dynamics plays a very important role in the activation, and fate decision process in the T lymphocytes. Here, we develop a quantitative spatio-temporal Ca2+ dynamic model which includes, the Ca2+ releasing channels ER leak and voltage-gated Ca2+ channel, buffering and re-uptaking mechanism in the T lymphocytes. In this model, the cell is represented as a circular-shaped geometrical domain. This representation introduces modeling flexibility needed for detailed representation of the properties of Ca2+ dynamics in the cell including important parameters. The proposed mathematical model is solved using a finite difference method and the finite element method. Appropriate initial and boundary conditions are incorporated in the model based on biophysical conditions of the problem. Computer simulations in MATLAB R2010a are employed to investigate mathematical models of reaction-diffusion equation. The estimation is based on reaction-diffusion equation associated with biophysical and biochemical reactions taking place in the cell. From our results, it is observed that, the coordinated combination of the incorporated parameters plays a significant role in Ca2+ regulation in T lymphocytes. ER leak and voltage-gated Ca2+ channel provides the necessary Ca2+ to the cell when required for its proper functioning, while on the other side buffers and Na+/Ca2+ exchanger makes balance in the Ca2+ concentration, so as to prevent the cell from death as higher concentration for longer time is harmful for the cell and can cause cell death. These results have been used to study the relationship of Ca2+ concentration with parameters like VGCC, Na+/Ca2+ exchanger, ER leak and buffers. The significance of the study reveals that there is a significant variation in Ca2+ profiles due to the effect of VGCC, Na+/Ca2+ exchanger, ER leak, and buffers. The results give us better insights of coordinated effect of VGCC, Na+/Ca2+ exchanger, ER leak, and buffers on Ca2+ distribution in T lymphocytes. T lymphocytes are the primary host cells to receive the viral infections which transmits the signal then to other cell types. The proper quantity of Ca2+ concentration makes T lymphocytes more active and healthier to fight the infection properly and can protect the immune system from various fatal viral infections. Thus, the application of the study lies in the field of immunology to protect a susceptible from various viral infectious diseases like HIV, HBV, HINI, etc. by strengthening the immune system. The outcomes of the study reveal that the applied finite element method is computationally very strong and effective to analyze differential equations that arise in Ca2+ dynamics.
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Affiliation(s)
- Parvaiz Ahmad Naik
- School of Mathematics and Statistics, Xi'an Jiaotong University, Xi'an, Shaanxi 710049, P. R. China
| | - Jian Zu
- School of Mathematics and Statistics, Xi'an Jiaotong University, Xi'an, Shaanxi 710049, P. R. China
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14
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Finite element model to study two dimensional unsteady state calcium distribution in cardiac myocytes. ALEXANDRIA JOURNAL OF MEDICINE 2019. [DOI: 10.1016/j.ajme.2015.09.007] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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15
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Joshi H, Jha BK. Fractionally delineate the neuroprotective function of calbindin-D28k in Parkinson’s disease. INT J BIOMATH 2019. [DOI: 10.1142/s1793524518501036] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
Neuron is a fundamental unit of the brain, which is specialized to transmit information throughout the body through electrical and chemical signals. Calcium ([Formula: see text]) ions are known as second messengers which play important roles in the movement of the neurotransmitter. Calbindin-[Formula: see text] is a [Formula: see text] binding protein which is involved in regulation of intracellular [Formula: see text] ions and maintains [Formula: see text] homeostasis level, it also alters the cytosolic calcium concentration ([[Formula: see text]]) in nerve cells to keep the cell alive. Parkinson’s disease (PD) is a chronic progressive neurodegenerative brain disorder of the nervous system. Several regions of the brain indicate the hallmark of the PD. The symptoms of PD are plainly linked with the degeneration and death of dopamine neurons in the substantia nigra pars compacta located in midbrain which is accompanied by depletion in calbindin-[Formula: see text]. In the present paper, the neuroprotective role of calbindin-[Formula: see text] in the cytoplasmic [[Formula: see text]] distribution is studied. The elicitation in [[Formula: see text]] is due to the presence of low amount of calbindin-[Formula: see text] which can be portrayed and is a hallmark of PD. A one-dimensional space time fractional reaction diffusion equation is designed by keeping in mind the physiological condition taking place inside Parkinson’s brain. Computational results are performed in MATLAB.
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Affiliation(s)
- Hardik Joshi
- Department of Mathematics, School of Technology, Pandit Deendayal Petroleum University, Gandhinagar, Gujarat 382007, India
| | - Brajesh Kumar Jha
- Department of Mathematics, School of Technology, Pandit Deendayal Petroleum University, Gandhinagar, Gujarat 382007, India
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Singh N, Adlakha N. Three dimensional coupled reaction–diffusion modeling of calcium and inositol 1,4,5-trisphosphate dynamics in cardiomyocytes. RSC Adv 2019; 9:42459-42469. [PMID: 35542883 PMCID: PMC9076935 DOI: 10.1039/c9ra06929a] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2019] [Accepted: 11/28/2019] [Indexed: 11/30/2022] Open
Abstract
Nanoparticles have shown great promise in improving cancer treatment efficacy by changing the intracellular calcium level through activation of intracellular mechanisms. One of the mechanisms of the killing of the cancerous cell by a nanoparticle is through elevation of the intracellular calcium level. Evidence accumulated over the past decade indicates a pivotal role for the IP3 receptor mediated Ca2+ release in the regulation of the cytosolic and the nuclear Ca2+ signals. There have been various studies done suggesting the role of IP3 receptors (IP3R) and IP3 production and degradation in cardiomyocytes. In the present work, we have proposed a three-dimensional unsteady-state mathematical model to describe the mechanism of cardiomyocytes which focuses on evaluation of various parameters that affect these coupled dynamics and elevate the cytosolic calcium concentration which can be helpful to search for novel therapies to cure these malignancies by targeting the complex calcium signaling process in cardiomyocytes. Our study suggests that there are other factors involved in this signaling which can increase the calcium level, which can help in finding treatment for cancer. The cytosolic calcium level may be controlled by IP3 signaling, leak, source influx of calcium (σ) and maximum production of IP3 (VP). We believe that the proposed model suggests new insight into finding treatment for cancer in cardiomyocytes through elevation of the cytosolic Ca2+ concentration by various parameters like leak, σ, VP and especially by other complex cell signaling dynamics, namely IP3 dynamics. We propose a three-dimensional unsteady-state mathematical model to describe the mechanism of cardiomyocytes.![]()
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Affiliation(s)
- Nisha Singh
- Applied Mathematics and Humanities Department
- SVNIT
- Surat
- India
| | - Neeru Adlakha
- Applied Mathematics and Humanities Department
- SVNIT
- Surat
- India
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Abstract
Brain is the most complex structure of the human body. The processes going inside the brain and the mechanisms behind it have been unrevealed up to certain extent only. Out of the various physiological phenomena carried out by the brain, calcium signalling can be considered as one of the most important. Calcium being a second messenger plays an important role in transformation of various information. In view of above, an attempt has been made here to study calcium signalling in presence of buffers, i.e. one kind of proteins and endoplasmic reticulum (ER), which is also known as store house of the cell. Being the store house of the cell, it has very high amount of calcium, whereas buffers decrease the level of free calcium ions by binding calcium ions to it. A two-dimensional mathematical model has been developed to see the impact of these parameters on cytosolic calcium concentration. This mathematical model is solved analytically using Laplace transforms and similarity transforms. The simulations are carried out using MATLAB. It is observed that the impact of buffer and ER is significant on calcium signalling. The obtained results are interpreted with the Alzheimeric condition of the nerve cells.
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Affiliation(s)
- Devanshi D. Dave
- Department of Mathematics, School of Technology, Pandit Deendayal Petroleum University, Raisan, Gandhinagar, Gujarat 382007, India
| | - Brajesh Kumar Jha
- Department of Mathematics, School of Technology, Pandit Deendayal Petroleum University, Raisan, Gandhinagar, Gujarat 382007, India
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Abstract
Under the widespread umbrella of dementia, Alzheimer’s disease is the most common form of dementia. Most of the aged people are suffering from Alzheimer’s disease around the world. The reasons for the same are not known in detail and thus various experimental and computational attempts need to be carried out. Calcium, being a second messenger has an immense role in transformation of information. This transformation takes place in the form of signaling in which several parameters play an active role. In present work, an attempt has been made to describe the effect of calcium signaling in nerve cells for Alzheimer’s disease. Here, parameters like advection diffusion and buffering are taken into consideration to visualize the effects of the same on cytosolic calcium concentration. This physiological process is modeled two dimensionally and solved analytically. Laplace and similarity transforms are employed to obtain the desired results. The results are simulated and graphically plotted using MATLAB. The known fact that the higher concentration of calcium has adverse effects on the cell which may result into progression of AD is considered as a lantern in enlightening the physiology of Alzheimer’s disease.
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Affiliation(s)
- DEVANSHI D. DAVE
- Department of Mathematics, School of Technology, Pandit Deendayal Petroleum University, Gandhinagar 382007, Gujarat, India
| | - BRAJESH KUMAR JHA
- Department of Mathematics, School of Technology, Pandit Deendayal Petroleum University, Gandhinagar 382007, Gujarat, India
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Hu H, Mo X, Li X, Fu X, Hou Y. BAPTA-AM dramatically improves maturation and development of bovine oocytes from grade-3 cumulus-oocyte complexes. Mol Reprod Dev 2017; 85:38-45. [PMID: 29205619 DOI: 10.1002/mrd.22936] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2017] [Accepted: 11/29/2017] [Indexed: 01/25/2023]
Abstract
Intracellular free calcium ([Ca2+ ]i ) is essential for oocyte maturation and early embryonic development. Here, we investigated the role of [Ca2+ ]i in oocytes from cumulus-oocyte complexes (COCs) with respect to maturation and early embryonic development, using the calcium-buffering agent BAPTA-AM (1,2-bis[2-aminophenoxy]ethane-N,N,N',N'-tetraacetic acid tetrakis [acetoxymethyl ester]). COCs were graded based on compactness of the cumulus mass and appearance of the cytoplasm, with Grade 1 indicating higher quality and developmental potential than Grade 3. Results showed that: (i) [Ca2+ ]i in metaphase-II (MII) oocytes from Grade-3 COCs was significantly higher than those from Grade-1 COCs, and was significantly reduced by BAPTA-AM; (ii) nuclear maturation of oocytes from Grade-3 COCs treated with BAPTA-AM was enhanced compared to untreated COCs; (iii) protein abundance of Cyclin B and oocyte-specific Histone 1 (H1FOO) was improved in MII oocytes from Grade-3 COCs treated with BAPTA-AM; (iv) Ca2+ transients were triggered in each group upon fertilization, and the amplitude of [Ca2+ ]i oscillations increased in the Grade-3 group upon treatment with BAPTA-AM, with the magnitude approaching that of the Grade-1 group; and (v) cleavage rates and blastocyst-formation rates were improved in the Grade-3 group treated with BAPTA-AM compared to untreated controls following in vitro fertilization and parthenogenetic activation. Therefore, BAPTA-AM dramatically improved oocyte maturation, oocyte quality, and embryonic development of oocytes from Grade-3 COCs.
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Affiliation(s)
- Hongmei Hu
- State Key Laboratory for Agrobiotechnology, College of Biological Sciences, China Agricultural University, Beijing, P. R. China
| | - Xianhong Mo
- College of Life Sciences, Chifeng University, Chifeng, P. R. China
| | - Xue Li
- State Key Laboratory for Agrobiotechnology, College of Biological Sciences, China Agricultural University, Beijing, P. R. China
| | - Xiangwei Fu
- National Engineering Laboratory for Animal Breeding and Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture, College of Animal Science and Technology, China Agricultural University, Beijing, P. R. China
| | - Yunpeng Hou
- State Key Laboratory for Agrobiotechnology, College of Biological Sciences, China Agricultural University, Beijing, P. R. China
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Jha BK, Joshi H, Dave DD. Portraying the Effect of Calcium-Binding Proteins on Cytosolic Calcium Concentration Distribution Fractionally in Nerve Cells. Interdiscip Sci 2016; 10:674-685. [DOI: 10.1007/s12539-016-0202-7] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2016] [Revised: 10/02/2016] [Accepted: 11/08/2016] [Indexed: 10/20/2022]
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Tiwari M, Prasad S, Shrivastav TG, Chaube SK. Calcium Signaling During Meiotic Cell Cycle Regulation and Apoptosis in Mammalian Oocytes. J Cell Physiol 2016; 232:976-981. [PMID: 27791263 DOI: 10.1002/jcp.25670] [Citation(s) in RCA: 55] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2016] [Accepted: 10/27/2016] [Indexed: 01/07/2023]
Abstract
Calcium (Ca++ ) is one of the major signal molecules that regulate various aspects of cell functions including cell cycle progression, arrest, and apoptosis in wide variety of cells. This review summarizes current knowledge on the differential roles of Ca++ in meiotic cell cycle resumption, arrest, and apoptosis in mammalian oocytes. Release of Ca++ from internal stores and/or Ca++ influx from extracellular medium causes moderate increase of intracellular Ca++ ([Ca++ ]i) level and reactive oxygen species (ROS). Increase of Ca++ as well as ROS levels under physiological range trigger maturation promoting factor (MPF) destabilization, thereby meiotic resumption from diplotene as well as metaphase-II (M-II) arrest in oocytes. A sustained increase of [Ca++ ]i level beyond physiological range induces generation of ROS sufficient enough to cause oxidative stress (OS) in aging oocytes. The increased [Ca++ ]i triggers Fas ligand-mediated oocyte apoptosis. Further, OS triggers mitochondria-mediated oocyte apoptosis in several mammalian species. Thus, Ca++ exerts differential roles on oocyte physiology depending upon its intracellular concentration. A moderate increase of [Ca++ ]i as well as ROS mediate spontaneous resumption of meiosis from diplotene as well as M-II arrest, while their high levels cause meiotic cell cycle arrest and apoptosis by operating both mitochondria- as well as Fas ligand-mediated apoptotic pathways. Indeed, Ca++ regulates cellular physiology by modulating meiotic cell cycle and apoptosis in mammalian oocytes. J. Cell. Physiol. 232: 976-981, 2017. © 2016 Wiley Periodicals, Inc.
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Affiliation(s)
- Meenakshi Tiwari
- Cell Physiology Laboratory, Department of Zoology, Institute of Science, Banaras Hindu University, Varanasi, Uttar Pradesh, India
| | - Shilpa Prasad
- Cell Physiology Laboratory, Department of Zoology, Institute of Science, Banaras Hindu University, Varanasi, Uttar Pradesh, India
| | - Tulsidas G Shrivastav
- Department of Reproductive Biomedicine, National Institute of Health and Family Welfare, Munirka, New Delhi, India
| | - Shail K Chaube
- Cell Physiology Laboratory, Department of Zoology, Institute of Science, Banaras Hindu University, Varanasi, Uttar Pradesh, India
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