High-fidelity discrete modeling of the HPA axis: a study of regulatory plasticity in biology

BackgroundThe hypothalamic-pituitary-adrenal (HPA) axis is a central regulator of stress response and its dysfunction has been associated with a broad range of complex illnesses including Gulf War Illness (GWI) and Chronic Fatigue Syndrome (CFS). Though classical mathematical approaches have been used to model HPA function in isolation, its broad regulatory interactions with immune and central nervous function are such that the biological fidelity of simulations is undermined by the limited availability of reliable parameter estimates.MethodHere we introduce and apply a generalized discrete formalism to recover multiple stable regulatory programs of the HPA axis using little more than connectivity between physiological components. This simple discrete model captures cyclic attractors such as the circadian rhythm by applying generic constraints to a minimal parameter set; this is distinct from Ordinary Differential Equation (ODE) models, which require broad and precise parameter sets. Parameter tuning is accomplished by decomposition of the overall regulatory network into isolated sub-networks that support cyclic attractors. Network behavior is simulated using a novel asynchronous updating scheme that enforces priority with memory within and between physiological compartments.ResultsConsistent with much more complex conventional models of the HPA axis, this parsimonious framework supports two cyclic attractors, governed by higher and lower levels of cortisol respectively. Importantly, results suggest that stress may remodel the stability landscape of this system, favoring migration from one stable circadian cycle to the other. Access to each regime is dependent on HPA axis tone, captured here by the tunable parameters of the multi-valued logic. Likewise, an idealized glucocorticoid receptor blocker alters the regulatory topology such that maintenance of persistently low cortisol levels is rendered unstable, favoring a return to normal circadian oscillation in both cortisol and glucocorticoid receptor expression.ConclusionThese results emphasize the significance of regulatory connectivity alone and how regulatory plasticity may be explored using simple discrete logic and minimal data compared to conventional methods.

[1]  Philip D. Harvey,et al.  A randomized, double-blind, placebo-controlled, crossover trial of mifepristone in Gulf War veterans with chronic multisymptom illness , 2016, Psychoneuroendocrinology.

[2]  R Thomas,et al.  Dynamical behaviour of biological regulatory networks--I. Biological role of feedback loops and practical use of the concept of the loop-characteristic state. , 1995, Bulletin of mathematical biology.

[3]  Kunle Olukotun,et al.  On fast parallel detection of strongly connected components (SCC) in small-world graphs , 2013, 2013 SC - International Conference for High Performance Computing, Networking, Storage and Analysis (SC).

[4]  Alessandro Agostini,et al.  Glucocorticoids, stress and obesity , 2010, Expert review of endocrinology & metabolism.

[5]  G. Chrousos,et al.  Corticotropin-releasing hormone receptor antagonists , 2006 .

[6]  Linda Rinaman,et al.  Interoceptive modulation of neuroendocrine, emotional, and hypophagic responses to stress , 2017, Physiology & Behavior.

[7]  Antonio Armario,et al.  Adaptation of the hypothalamus–pituitary–adrenal axis to daily repeated stress does not follow the rules of habituation: A new perspective , 2015, Neuroscience & Biobehavioral Reviews.

[8]  R. Clark,et al.  Glucocorticoid receptor antagonists. , 2008, Current topics in medicinal chemistry.

[9]  Albertus Beishuizen,et al.  The immunoneuroendocrine axis in critical illness: beneficial adaptation or neuroendocrine exhaustion? , 2004, Current opinion in critical care.

[10]  El Houssine Snoussi,et al.  Logical identification of all steady states: The concept of feedback loop characteristic states , 1993 .

[11]  Krasimir Vasilev,et al.  Ghrelin protects against osteoarthritis through interplay with Akt and NF‐κB signaling pathways , 2017, FASEB journal : official publication of the Federation of American Societies for Experimental Biology.

[12]  C Wöber,et al.  Critical illness polyneuropathy: incidence and risk factors , 2006, Critical Care.

[13]  Andrés Fernando González Barrios,et al.  Modeling of the hypothalamic-pituitary-adrenal axis-mediated interaction between the serotonin regulation pathway and the stress response using a Boolean approximation: a novel study of depression , 2013, Theoretical Biology and Medical Modelling.

[14]  Maxim Teslenko,et al.  A SAT-Based Algorithm for Finding Attractors in Synchronous Boolean Networks , 2011, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

[15]  Andrew H. Miller,et al.  Immune modulation of the hypothalamic-pituitary-adrenal (HPA) axis during viral infection. , 2005, Viral immunology.

[16]  James P. O'Callaghan,et al.  Corticosterone primes the neuroinflammatory response to DFP in mice: potential animal model of Gulf War Illness , 2015, Journal of neurochemistry.

[17]  A. Bartke,et al.  The Endocrine System , 1998, Alcohol health and research world.

[18]  Donald E Ingber,et al.  A non-genetic basis for cancer progression and metastasis: self-organizing attractors in cell regulatory networks. , 2006, Breast disease.

[19]  Robert E. Tarjan,et al.  Enumeration of the Elementary Circuits of a Directed Graph , 1972, SIAM J. Comput..

[20]  Giovanni De Micheli,et al.  Modeling stochasticity and robustness in gene regulatory networks , 2009, Bioinform..

[21]  F. Lussana,et al.  Mechanisms of Resistance to Targeted Therapies in Chronic Myeloid Leukemia. , 2018, Handbook of experimental pharmacology.

[22]  S. Campeau,et al.  Stressor-specific effects of sex on HPA axis hormones and activation of stress-related neurocircuitry , 2013, Stress.

[23]  Heike Siebert,et al.  Approximating Attractors of Boolean Networks by Iterative CTL Model Checking , 2015, Front. Bioeng. Biotechnol..

[24]  Soo S. Rhee,et al.  Sistema endocrino y corazon: una revision , 2011 .

[25]  John R. Terry,et al.  Origin of ultradian pulsatility in the hypothalamic–pituitary–adrenal axis , 2010, Proceedings of the Royal Society B: Biological Sciences.

[26]  R. Thomas,et al.  Multistationarity, the basis of cell differentiation and memory. I. Structural conditions of multistationarity and other nontrivial behavior. , 2001, Chaos.

[27]  Dana Jessen,et al.  The functional highly sensitive brain: a review of the brain circuits underlying sensory processing sensitivity and seemingly related disorders , 2018, Philosophical Transactions of the Royal Society B: Biological Sciences.

[28]  C. Locht,et al.  BCG and protection against inflammatory and auto-immune diseases , 2017, Expert review of vaccines.

[29]  Miranda Olff,et al.  HPA- and HPT-axis alterations in chronic posttraumatic stress disorder , 2006, Psychoneuroendocrinology.

[30]  Donald B. Johnson,et al.  Finding All the Elementary Circuits of a Directed Graph , 1975, SIAM J. Comput..

[31]  J. D. de Oliveira,et al.  HPA axis and vagus nervous function are involved in impaired insulin secretion of MSG-obese rats. , 2016, The Journal of endocrinology.

[32]  Denis Thieffry,et al.  Logical Modeling and Dynamical Analysis of Cellular Networks , 2016, Front. Genet..

[33]  Réka Albert,et al.  Discrete dynamic network modeling of oncogenic signaling: Mechanistic insights for personalized treatment of cancer , 2018, Current opinion in systems biology.

[34]  Martine Labbé,et al.  Identification of all steady states in large networks by logical analysis , 2003, Bulletin of mathematical biology.

[35]  Amos Ben-Zvi,et al.  Model-Based Therapeutic Correction of Hypothalamic-Pituitary-Adrenal Axis Dysfunction , 2009, PLoS Comput. Biol..

[36]  Alexander Bockmayr,et al.  Time Series Dependent Analysis of Unparametrized Thomas Networks , 2012, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

[37]  Gordon Broderick,et al.  A Role for Homeostatic Drive in the Perpetuation of Complex Chronic Illness: Gulf War Illness and Chronic Fatigue Syndrome , 2014, PloS one.

[38]  Marco Boscaro,et al.  Harmful effects of functional hypercortisolism: a working hypothesis , 2014, Endocrine.

[39]  Tom Chou,et al.  Onset, timing, and exposure therapy of stress disorders: mechanistic insight from a mathematical model of oscillating neuroendocrine dynamics , 2016, Biology Direct.

[40]  Anthony J. Cleare,et al.  Hypothalamic–pituitary–adrenal axis dysfunction in chronic fatigue syndrome , 2012, Nature Reviews Endocrinology.

[41]  L. Darrell Whitley,et al.  Selecting Optimal Models Based on Efficiency and Robustness in Multi-valued Biological Networks , 2017, 2017 IEEE 17th International Conference on Bioinformatics and Bioengineering (BIBE).

[42]  Giovanni De Micheli,et al.  Synchronous versus asynchronous modeling of gene regulatory networks , 2008, Bioinform..

[43]  Aurélien Naldi,et al.  Dynamically consistent reduction of logical regulatory graphs , 2011, Theor. Comput. Sci..

[44]  Michelle L. Wynn,et al.  Logic-based models in systems biology: a predictive and parameter-free network analysis method. , 2012, Integrative biology : quantitative biosciences from nano to macro.

[45]  D Thieffry,et al.  GINsim: a software suite for the qualitative modelling, simulation and analysis of regulatory networks. , 2006, Bio Systems.

[46]  Eric Aslakson,et al.  Inclusion of the glucocorticoid receptor in a hypothalamic pituitary adrenal axis model reveals bistability , 2007, Theoretical Biology and Medical Modelling.

[47]  R. Burnap Systems and Photosystems: Cellular Limits of Autotrophic Productivity in Cyanobacteria , 2014, Front. Bioeng. Biotechnol..

[48]  R. Yehuda,et al.  Twenty-four Hour Plasma Cortisol and Adrenocorticotropic Hormone in Gulf War Veterans: Relationships to Posttraumatic Stress Disorder and Health Symptoms , 2007, Biological Psychiatry.

[49]  R. Yehuda,et al.  Minireview: Stress-related psychiatric disorders with low cortisol levels: a metabolic hypothesis. , 2011, Endocrinology.

[50]  G. Morris,et al.  Hypothalamic-Pituitary-Adrenal Hypofunction in Myalgic Encephalomyelitis (ME)/Chronic Fatigue Syndrome (CFS) as a Consequence of Activated Immune-Inflammatory and Oxidative and Nitrosative Pathways , 2017, Molecular Neurobiology.

[51]  Alexander Bockmayr,et al.  Computing maximal and minimal trap spaces of Boolean networks , 2015, Natural Computing.

[52]  M. Aldana,et al.  Floral Morphogenesis: Stochastic Explorations of a Gene Network Epigenetic Landscape , 2008, PloS one.

[53]  Aurélien Naldi,et al.  Dynamical analysis of a generic Boolean model for the control of the mammalian cell cycle , 2006, ISMB.

[54]  Hadine Joffe,et al.  Ovarian hormone fluctuation, neurosteroids, and HPA axis dysregulation in perimenopausal depression: a novel heuristic model. , 2015, The American journal of psychiatry.

[55]  V. E. Dosenko,et al.  Hippocampus remodeling by chronic stress accompanied by GR, proteasome and caspase-3 overexpression , 2014, Brain Research.

[56]  J. Cidlowski,et al.  Glucocorticoids, stress, and fertility. , 2010, Minerva endocrinologica.

[57]  R. Thomas,et al.  Multistationarity, the basis of cell differentiation and memory. II. Logical analysis of regulatory networks in terms of feedback circuits. , 2001, Chaos.

[58]  Denis Thieffry,et al.  Qualitative Analysis of Regulatory Graphs: A Computational Tool Based on a Discrete Formal Framework , 2003, POSTA.

[59]  D. Gillespie Exact Stochastic Simulation of Coupled Chemical Reactions , 1977 .

[60]  Larry A Tupler,et al.  Factorial invariance of posttraumatic stress disorder symptoms across three veteran samples. , 2008, Journal of traumatic stress.

[61]  Antonio Armario,et al.  The neuroendocrine response to stress under the effect of drugs: Negative synergy between amphetamine and stressors , 2016, Psychoneuroendocrinology.

[62]  J. Konopka,et al.  Modulating Host Signaling Pathways to Promote Resistance to Infection by Candida albicans , 2017, Front. Cell. Infect. Microbiol..

[63]  Julio Saez-Rodriguez,et al.  Exhaustively characterizing feasible logic models of a signaling network using Answer Set Programming , 2013, Bioinform..