Analytic Models of Oxygen and Nutrient Diffusion, Metabolism Dynamics, and Architecture Optimization in Three-Dimensional Tissue Constructs with Applications and Insights in Cerebral Organoids

Diffusion models are important in tissue engineering as they enable an understanding of gas, nutrient, and signaling molecule delivery to cells in cell cultures and tissue constructs. As three-dimensional (3D) tissue constructs become larger, more intricate, and more clinically applicable, it will be essential to understand internal dynamics and signaling molecule concentrations throughout the tissue and whether cells are receiving appropriate nutrient delivery. Diffusion characteristics present a significant limitation in many engineered tissues, particularly for avascular tissues and for cells whose viability, differentiation, or function are affected by concentrations of oxygen and nutrients. This article seeks to provide novel analytic solutions for certain cases of steady-state and nonsteady-state diffusion and metabolism in basic 3D construct designs (planar, cylindrical, and spherical forms), solutions that would otherwise require mathematical approximations achieved through numerical methods. This model is applied to cerebral organoids, where it is shown that limitations in diffusion and organoid size can be partially overcome by localizing metabolically active cells to an outer layer in a sphere, a regionalization process that is known to occur through neuroglial precursor migration both in organoids and in early brain development. The given prototypical solutions include a review of metabolic information for many cell types and can be broadly applied to many forms of tissue constructs. This work enables researchers to model oxygen and nutrient delivery to cells, predict cell viability, study dynamics of mass transport in 3D tissue constructs, design constructs with improved diffusion capabilities, and accurately control molecular concentrations in tissue constructs that may be used in studying models of development and disease or for conditioning cells to enhance survival after insults like ischemia or implantation into the body, thereby providing a framework for better understanding and exploring the characteristics and behaviors of engineered tissue constructs.

[1]  Michael S Kallos,et al.  Embryonic stem cells remain highly pluripotent following long term expansion as aggregates in suspension bioreactors. , 2007, Journal of biotechnology.

[2]  G. Zacchi,et al.  Use of holographic laser interferometry to study the diffusion of polymers in gels. , 2000, Biotechnology and Bioengineering.

[3]  S. Herculano‐Houzel Scaling of Brain Metabolism with a Fixed Energy Budget per Neuron: Implications for Neuronal Activity, Plasticity and Evolution , 2011, PloS one.

[4]  H. Greenspan Models for the Growth of a Solid Tumor by Diffusion , 1972 .

[5]  Zoran Ivanovic,et al.  Hypoxia or in situ normoxia: The stem cell paradigm , 2009, Journal of cellular physiology.

[6]  J. Urban,et al.  Nutrient gradients in engineered cartilage: Metabolic kinetics measurement and mass transfer modeling , 2008, Biotechnology and bioengineering.

[7]  C A van Blitterswijk,et al.  Quantifying in vitro growth and metabolism kinetics of human mesenchymal stem cells using a mathematical model. , 2009, Tissue engineering. Part A.

[8]  K. Francis,et al.  Human embryonic stem cell neural differentiation and enhanced cell survival promoted by hypoxic preconditioning , 2010, Cell Death and Disease.

[9]  J. Gaylor,et al.  Techniques for Measurement of Oxygen Consumption Rates of Hepatocytes during Attachment and Post-Attachment , 1996, The International journal of artificial organs.

[10]  Pierre J Magistretti,et al.  Brain energy metabolism: focus on astrocyte-neuron metabolic cooperation. , 2011, Cell metabolism.

[11]  John Harrison Fast and Accurate Bessel Function Computation , 2009, 2009 19th IEEE Symposium on Computer Arithmetic.

[12]  M. Guppy,et al.  The role of the Crabtree effect and an endogenous fuel in the energy metabolism of resting and proliferating thymocytes. , 1993, European journal of biochemistry.

[13]  J. Chatham,et al.  Importance of the bioenergetic reserve capacity in response to cardiomyocyte stress induced by 4-hydroxynonenal. , 2009, The Biochemical journal.

[14]  Steven P Jones,et al.  Standardized bioenergetic profiling of adult mouse cardiomyocytes. , 2012, Physiological genomics.

[15]  G. Daley,et al.  Stem cell metabolism in tissue development and aging , 2013, Development.

[16]  M. Gassmann,et al.  Oxygen supply and oxygen-dependent gene expression in differentiating embryonic stem cells. , 1996, Proceedings of the National Academy of Sciences of the United States of America.

[17]  A. Boskey Hydroxyapatite formation in a dynamic collagen gel system: effects of type I collagen, lipids, and proteoglycans , 1989 .

[18]  Bruce B. Benson,et al.  The concentration and isotopic fractionation of gases dissolved in freshwater in equilibrium with the atmosphere. 1. Oxygen , 1980 .

[19]  Basavaraj Hooli,et al.  A three-dimensional human neural cell culture model of Alzheimer’s disease , 2014, Nature.

[20]  C. Cooney,et al.  Model of oxygen transport limitations in hollow fiber bioreactors , 1991, Biotechnology and bioengineering.

[21]  Johannes Schwarz,et al.  Long-Term Proliferation and Dopaminergic Differentiation of Human Mesencephalic Neural Precursor Cells , 2001, Experimental Neurology.

[22]  L. Sokoloff,et al.  RELATION BETWEEN PHYSIOLOGICAL FUNCTION AND ENERGY METABOLISM IN THE CENTRAL NERVOUS SYSTEM , 1977, Journal of neurochemistry.

[23]  Joost D de Bruijn,et al.  The metabolism of human mesenchymal stem cells during proliferation and differentiation , 2011, Journal of cellular physiology.

[24]  Yvonne Will,et al.  Characterization of human-induced pluripotent stem cell-derived cardiomyocytes: bioenergetics and utilization in safety screening. , 2012, Toxicological sciences : an official journal of the Society of Toxicology.

[25]  R. Weiss The solubility of nitrogen, oxygen and argon in water and seawater , 1970 .

[26]  Milica Radisic,et al.  Oxygen gradients correlate with cell density and cell viability in engineered cardiac tissue , 2006, Biotechnology and bioengineering.

[27]  G. Buettner,et al.  The rate of oxygen utilization by cells. , 2011, Free radical biology & medicine.

[28]  L. Rosenhead Conduction of Heat in Solids , 1947, Nature.

[29]  M. Shoichet,et al.  Injectable hydrogels for central nervous system therapy , 2012, Biomedical materials.

[30]  R. Grossman,et al.  Cerebral arteriovenous oxygen difference as an estimate of cerebral blood flow in comatose patients. , 1989, Journal of neurosurgery.

[31]  Peter Kirwan,et al.  Human cerebral cortex development from pluripotent stem cells to functional excitatory synapses , 2012, Nature Neuroscience.

[32]  V. Sridharan,et al.  O(2)-sensing signal cascade: clamping of O(2) respiration, reduced ATP utilization, and inducible fumarate respiration. , 2008, American journal of physiology. Cell physiology.

[33]  C. Ware,et al.  HIF1α induced switch from bivalent to exclusively glycolytic metabolism during ESC‐to‐EpiSC/hESC transition , 2012, The EMBO journal.

[34]  A Shirazi-Adl,et al.  Finite Element Study of Nutrient Diffusion in the Human Intervertebral Disc , 2003, Spine.

[35]  W. Jost,et al.  Diffusion in Solids, Liquids, Gases , 1952, Zeitschrift für Physikalische Chemie.

[36]  Sophia Maggelakis,et al.  Mathematical model of prevascular growth of a spherical carcinoma-part II , 1993 .

[37]  D. Millhorn,et al.  Hypoxia regulates glutamate metabolism and membrane transport in rat PC12 cells , 2001, Journal of neurochemistry.

[38]  Madeline A. Lancaster,et al.  Generation of cerebral organoids from human pluripotent stem cells , 2014, Nature Protocols.

[39]  J. Carlsson,et al.  Influence of the oxygen pressure in the culture medium on the oxygenation of different types of multicellular spheroids. , 1985, International journal of radiation oncology, biology, physics.

[40]  Robert W. Balluffi,et al.  Kinetics Of Materials , 2005 .

[41]  J. Nichols,et al.  Resetting Transcription Factor Control Circuitry toward Ground-State Pluripotency in Human , 2014, Cell.

[42]  A. V. Luikov,et al.  Analytical Heat Diffusion Theory , 1969 .

[43]  Brian Keith,et al.  HIF-2alpha regulates Oct-4: effects of hypoxia on stem cell function, embryonic development, and tumor growth. , 2006, Genes & development.

[44]  J. Ochocki,et al.  Nutrient-sensing pathways and metabolic regulation in stem cells , 2013, The Journal of cell biology.

[45]  O. Mimura,et al.  Ischemic Stroke Brain Sends Indirect Cell Death Signals to the Heart , 2013, Stroke.

[46]  J. Nichols,et al.  Resetting Transcription Factor Control Circuitry toward Ground-State Pluripotency in Human , 2014, Cell.

[47]  Michael A Teitell,et al.  Pluripotent stem cell energy metabolism: an update , 2015, The EMBO journal.

[48]  G. Semenza,et al.  A nuclear factor induced by hypoxia via de novo protein synthesis binds to the human erythropoietin gene enhancer at a site required for transcriptional activation , 1992, Molecular and cellular biology.

[49]  Nadine Kabbani,et al.  Enhanced Proliferation, Survival, and Dopaminergic Differentiation of CNS Precursors in Lowered Oxygen , 2000, The Journal of Neuroscience.

[50]  Suzana Herculano-Houzel,et al.  Coordinated Scaling of Cortical and Cerebellar Numbers of Neurons , 2010, Front. Neuroanat..

[51]  Binil Starly,et al.  Real time measurement of cellular Oxygen Uptake Rates (OUR) by a fiber optic sensor , 2009, 2009 IEEE International Conference on Virtual Environments, Human-Computer Interfaces and Measurements Systems.

[52]  Bojana Obradovic,et al.  Glycosaminoglycan deposition in engineered cartilage: Experiments and mathematical model , 2000 .

[53]  David R Poirier,et al.  Mass Transfer in Fluid Systems , 2016 .

[54]  D. Blesa,et al.  Hypoxia Promotes Efficient Differentiation of Human Embryonic Stem Cells to Functional Endothelium , 2010, Stem cells.

[55]  R. Roberts,et al.  Low O2 tensions and the prevention of differentiation of hES cells. , 2005, Proceedings of the National Academy of Sciences of the United States of America.

[56]  Frederico A. C. Azevedo,et al.  Equal numbers of neuronal and nonneuronal cells make the human brain an isometrically scaled‐up primate brain , 2009, The Journal of comparative neurology.

[57]  Keisuke Ito,et al.  Metabolic requirements for the maintenance of self-renewing stem cells , 2014, Nature Reviews Molecular Cell Biology.

[58]  A. Bauer,et al.  Regulation of tyrosine hydroxylase promoter activity by the von Hippel–Lindau tumor suppressor protein and hypoxia‐inducible transcription factors , 2003, Journal of neurochemistry.

[59]  D. Burstein,et al.  Diffusion of small solutes in cartilage as measured by nuclear magnetic resonance (NMR) spectroscopy and imaging , 1993, Journal of orthopaedic research : official publication of the Orthopaedic Research Society.

[60]  N. Lassen,et al.  Average Blood Flow and Oxygen Uptake in the Human Brain during Resting Wakefulness: A Critical Appraisal of the Kety—Schmidt Technique , 1993, Journal of cerebral blood flow and metabolism : official journal of the International Society of Cerebral Blood Flow and Metabolism.

[61]  J P Freyer,et al.  Rates of oxygen consumption for proliferating and quiescent cells isolated from multicellular tumor spheroids. , 1994, Advances in experimental medicine and biology.

[62]  W. Mutschler,et al.  Hypoxia in static and dynamic 3D culture systems for tissue engineering of bone. , 2008, Tissue engineering. Part A.

[63]  Richard O C Oreffo,et al.  Hypoxia inducible factors regulate pluripotency and proliferation in human embryonic stem cells cultured at reduced oxygen tensions , 2010, Reproduction.

[64]  S. Laughlin,et al.  An Energy Budget for Signaling in the Grey Matter of the Brain , 2001, Journal of cerebral blood flow and metabolism : official journal of the International Society of Cerebral Blood Flow and Metabolism.

[65]  G. Hébrard,et al.  Experimental study of oxygen diffusion coefficients in clean water containing salt, glucose or surfactant: Consequences on the liquid-side mass transfer coefficients , 2010 .

[66]  Kevin Kit Parker,et al.  Micromolded gelatin hydrogels for extended culture of engineered cardiac tissues. , 2014, Biomaterials.

[67]  Y. Hirano,et al.  Analysis of beat fluctuations and oxygen consumption in cardiomyocytes by scanning electrochemical microscopy. , 2014, Analytical biochemistry.

[68]  M. Celeste Simon,et al.  O2 regulates stem cells through Wnt/β-catenin signalling , 2010, Nature Cell Biology.

[69]  P. Arthur,et al.  Hibernation in Noncontracting Mammalian Cardiomyocytes , 2000, Circulation.

[70]  Edward L Cussler,et al.  Diffusion: Mass Transfer in Fluid Systems , 1984 .

[71]  C. Roberts,et al.  Effect of culturing mouse embryos under different oxygen concentrations on subsequent fetal and placental development , 2006, The Journal of physiology.

[72]  Roberto Lent,et al.  Isotropic Fractionator: A Simple, Rapid Method for the Quantification of Total Cell and Neuron Numbers in the Brain , 2005, The Journal of Neuroscience.

[73]  R K Jain,et al.  Hindered diffusion in agarose gels: test of effective medium model. , 1996, Biophysical journal.

[74]  Larry A. Glasgow,et al.  Diffusional Mass Transfer , 2010 .

[75]  Robert A. Brown,et al.  Oxygen diffusion through collagen scaffolds at defined densities: implications for cell survival in tissue models , 2012, Journal of tissue engineering and regenerative medicine.

[76]  R. J. McMurtrey,et al.  Patterned and functionalized nanofiber scaffolds in three-dimensional hydrogel constructs enhance neurite outgrowth and directional control , 2014, Journal of neural engineering.

[77]  Saroja Ramanujan,et al.  Diffusion and convection in collagen gels: implications for transport in the tumor interstitium. , 2002, Biophysical journal.

[78]  WeyandBirgit,et al.  Noninvasive Oxygen Monitoring in Three-Dimensional Tissue Cultures Under Static and Dynamic Culture Conditions , 2015 .

[79]  David J. Anderson,et al.  Culture in Reduced Levels of Oxygen Promotes Clonogenic Sympathoadrenal Differentiation by Isolated Neural Crest Stem Cells , 2000, The Journal of Neuroscience.

[80]  P. Torzilli,et al.  Measurement of diffusion of uncharged molecules in articular cartilage. , 1984, The Cornell veterinarian.

[81]  Madeline A. Lancaster,et al.  Cerebral organoids model human brain development and microcephaly , 2013, Nature.

[82]  T. Ma,et al.  Preconditioning Stem Cells for In Vivo Delivery , 2014, BioResearch open access.

[83]  G. Semenza,et al.  Characterization of hypoxia-inducible factor 1 and regulation of DNA binding activity by hypoxia. , 1993, The Journal of biological chemistry.

[84]  A. M. Howatson,et al.  Engineering Tables and Data , 1972 .

[85]  M. Suematsu,et al.  Regulation of glycolysis by Pdk functions as a metabolic checkpoint for cell cycle quiescence in hematopoietic stem cells. , 2013, Cell stem cell.

[86]  H. Holzhütter,et al.  Oxygen Consumption Rates during Three Different Neuronal Activity States in the Hippocampal CA3 Network , 2013, Journal of cerebral blood flow and metabolism : official journal of the International Society of Cerebral Blood Flow and Metabolism.

[87]  L.T. Watson,et al.  Analysis of a diffusion‐limited hollow fiber reactor for the measurement of effective substrate diffusivities , 1985, Biotechnology and bioengineering.

[88]  J. Haycock,et al.  Regulation of Catecholamines by Sustained and Intermittent Hypoxia in Neuroendocrine Cells and Sympathetic Neurons , 2003, Hypertension.

[89]  D. Kehoe,et al.  Scalable stirred-suspension bioreactor culture of human pluripotent stem cells. , 2010, Tissue engineering. Part A.

[90]  Milica Radisic,et al.  Engineered cardiac tissues. , 2011, Current opinion in biotechnology.

[91]  A. Maroudas,et al.  Physicochemical properties of cartilage in the light of ion exchange theory. , 1968, Biophysical journal.

[92]  J. Tramper,et al.  Oxygen gradients in tissue‐engineered Pegt/Pbt cartilaginous constructs: Measurement and modeling , 2004, Biotechnology and bioengineering.

[93]  A. Boskey,et al.  Rediscovering Hydrogel-Based Double-Diffusion Systems for Studying Biomineralization. , 2012, CrystEngComm.

[94]  Z. Zuo,et al.  Isoflurane preconditioning and postconditioning in rat hippocampal neurons , 2010, Brain Research.

[95]  M. Peppelenbosch,et al.  Hypoxia induces a hedgehog response mediated by HIF‐1α , 2009, Journal of cellular and molecular medicine.

[96]  Arnold R Kriegstein,et al.  Patterns of neuronal migration in the embryonic cortex , 2004, Trends in Neurosciences.

[97]  G. Schatten,et al.  Energy Metabolism in Human Pluripotent Stem Cells and Their Differentiated Counterparts , 2011, PloS one.

[98]  V. Darley-Usmar,et al.  Mitochondrial reserve capacity in endothelial cells: The impact of nitric oxide and reactive oxygen species. , 2010, Free radical biology & medicine.

[99]  M. McCabe The diffusion coefficient of caffeine through agar gels containing a hyaluronic acid-protein complex. A model system for the study of the permeability of connective tissues. , 1972, The Biochemical journal.

[100]  M. Czyzyk-Krzeska,et al.  Hypoxia increases rate of transcription and stability of tyrosine hydroxylase mRNA in pheochromocytoma (PC12) cells. , 1994, The Journal of biological chemistry.

[101]  H. Ruohola-Baker,et al.  Dystrophin-deficient cardiomyocytes derived from human urine: new biologic reagents for drug discovery. , 2014, Stem cell research.

[102]  U Grossmann,et al.  Profiles of oxygen partial pressure and oxygen consumption inside multicellular spheroids. , 1984, Recent results in cancer research. Fortschritte der Krebsforschung. Progres dans les recherches sur le cancer.

[103]  Lin Yang,et al.  Enhanced differentiation of neural stem cells to neurons and promotion of neurite outgrowth by oxygen–glucose deprivation , 2015, International Journal of Developmental Neuroscience.

[104]  D. Geschwind,et al.  Functional cortical neurons and astrocytes from human pluripotent stem cells in 3D culture , 2015, Nature Methods.

[105]  A Shirazi-Adl,et al.  Analysis of nonlinear coupled diffusion of oxygen and lactic acid in intervertebral discs. , 2005, Journal of biomechanical engineering.

[106]  Jos Malda,et al.  The roles of hypoxia in the in vitro engineering of tissues. , 2007, Tissue engineering.

[107]  F J Schoen,et al.  Cardiac tissue engineering: cell seeding, cultivation parameters, and tissue construct characterization. , 1999, Biotechnology and bioengineering.

[108]  R. Andrew,et al.  Brainstem Neurons Survive the Identical Ischemic Stress That Kills Higher Neurons: Insight to the Persistent Vegetative State , 2014, PloS one.

[109]  G. Semenza,et al.  Metabolic regulation of hematopoietic stem cells in the hypoxic niche. , 2011, Cell stem cell.

[110]  P. Vogt,et al.  Noninvasive Oxygen Monitoring in Three-Dimensional Tissue Cultures Under Static and Dynamic Culture Conditions , 2015, BioResearch open access.

[111]  G. Basso,et al.  Oxygen tension controls the expansion of human CNS precursors and the generation of astrocytes and oligodendrocytes , 2007, Molecular and Cellular Neuroscience.

[112]  Mandar Joshi,et al.  Abnormal Mitochondrial L-Arginine Transport Contributes to the Pathogenesis of Heart Failure and Rexoygenation Injury , 2014, PloS one.

[113]  R. Berber,et al.  Oxygen diffusivity in calcium alginate gel beads containing Gluconobacter suboxydans. , 1996, Artificial cells, blood substitutes, and immobilization biotechnology.

[114]  M. Toner,et al.  Oxygen uptake rates and liver‐specific functions of hepatocyte and 3T3 fibroblast co‐cultures , 2007, Biotechnology and bioengineering.

[115]  C. Kleinstreuer,et al.  Analysis and simulation of hollow‐fiber bioreactor dynamics , 1986, Biotechnology and bioengineering.

[116]  E. Bywaters,et al.  The metabolism of joint tissues , 1937 .