# Engineering Parameters in Bioreactor’s Design: A Critical Aspect in Tissue Engineering

Authors: Nasim Salehi-Nik; Ghassem Amoabediny; Behdad Pouran; Hadi Tabesh; Mohammad Ali Shokrgozar; Nooshin Haghighipour; Nahid Khatibi; Fatemeh Anisi; Khosrow Mottaghy; Behrouz Zandieh-Doulabi
Journal: BioMed Research International
 (2013)

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## Abstract

Bioreactors are important inevitable part of any tissue engineering (TE) strategy as they aid the construction of three-dimensional functional tissues. Since the ultimate aim of a bioreactor is to create a biological product, the engineering parameters, for example, internal and external mass transfer, fluid velocity, shear stress, electrical current distribution, and so forth, are worth to be thoroughly investigated. The effects of such engineering parameters on biological cultures have been addressed in only a few preceding studies. Furthermore, it would be highly inefficient to determine the optimal engineering parameters by trial and error method. A solution is provided by emerging modeling and computational tools and by analyzing oxygen, carbon dioxide, and nutrient and metabolism waste material transports, which can simulate and predict the experimental results. Discovering the optimal engineering parameters is crucial not only to reduce the cost and time of experiments, but also to enhance efficacy and functionality of the tissue construct. This review intends to provide an inclusive package of the engineering parameters together with their calculation procedure in addition to the modeling techniques in TE bioreactors.


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## Body

## 1. Introduction

Tissue engineering aims to generate three-dimensional (3D) artificial tissues. Its consequential task is to regenerate human tissue or develop cell-based substitutes for tissue in order to restore, reconstruct, or improve tissue functions [1, 2]. Achieving biological and mechanical functionality of the newly formed tissue is paramount for tissue engineered structures. Yet current research often focusses on form rather than function. Regeneration of functional organs demands intensive researches and studies in every aspect of TE [3], since creating a functional tissue requires the efficient growth of various types of cells on a single 3D structure [2].Bioreactors can aid the production of functional 3D tissues as follows: (1) by maintaining a desired uniform cell concentration within the scaffold during cell seeding, (2) by controlling microenvironmental parameters (e.g., temperature, pH, pressure, oxygen tension, metabolites, regulatory molecules, shear stress, and electrical pacing) and aseptic parameters (e.g., feeding, waste removal, and sampling), (3) by facilitating mass transfer [4–7], and more importantly (4) by allowing for automated processing steps.Moreover, each special type of tissue structure and production procedure (e.g., skin, bone, blood vessel, cartilage, and myocardium) necessitates a unique kind of bioreactor design which requires both biological and engineering conditions to be addressed along with reliability, reproducibility, scalability, and safety issues [8–10].In this review, key technical challenges between biological parameters and engineering parameters are recognized along with an overview of present mathematical modeling and monitoring of tissue growth carried out in the Research Center for New Technologies in Life Science Engineering at University of Tehran (UTLSE) to help deal with ongoing challenges.


## 2. Engineering Parameters in TE Bioreactor Design

Generally, the major responsibilities of a bioreactor are to provide a biomechanical and a biochemical environment that controls nutrient and oxygen transfer to the cells and metabolic products from the cells [11–13]. Mass transfer problems (e.g., oxygen and nutrient supply and removal of toxic metabolites) must always be taken into account. The size of most engineered tissues is limited as they do not have their own blood system and the cells are only nourished by diffusion [14, 15]. Since tissue constructions should have larger dimensions to become functional, mass transfer limitation can be considered as one of the greatest engineering challenges [1].Moreover, biomechanical stimuli such as shear stress can be applied throughout the bioreactor by means of culture medium flow [10, 16]. In this condition, nutrient and waste transfer are automatically regulated by the flow of the growth medium. Other types of mechanical stimuli can also be applied to tissue constructs using a bioreactor, including axial compression or tensile forces [11].Although biomechanical stimuli have many advantages for tissue engineering, mechanical stimuli can also induce tissue degradation, by alterations in the synthesis of matrix [16]. All in all, the response of some types of cells to mechanical stress causes radical changes to the tissue structure and composition which leads to alterations in tissue functionality.In the following section, some of the engineering parameters which help providing physical stimulation to TE constructs in order to enhance tissue formation and their concomitant challenges are specified.


### 2.1. Mass Transfer through Bioreactors

The major obstacle that hinders practical application of 3D cell seeded constructs is mass transfer [5]. After distributing cells throughout porous scaffolds, a key challenge is the maintenance of cell viability, especially within the interior of the construct during prolonged culture. Nutrients, oxygen, and regulatory molecules have to be efficiently transferred from the bulk culture medium to the tissue surfaces (i.e., external mass transfer) as well as to the interior cells of the tissue construct (i.e., internal mass transfer). In addition, metabolites and CO2 are to be removed from the cells within the tissue to the bulk medium. While external mass transfer rates depend primarily on hydrodynamic conditions in a bioreactor, internal mass transfer rates may depend on a combination of diffusion and convection mechanisms (typically induced by medium perfusion or scaffold deformation). Internal mass transfer depends strongly on the scaffold’s structure and porosity, the overall cell or scaffold construct size, and the diffusion rate through the biomaterial [17, 18].Improving the scaffold design will aid efficient mass transfer. For example, a laminar flow within tubular structures located within a scaffold may be beneficial for the generation of large TE constructs but requires the development of advanced bioreactor systems.Amongst mass transfer mechanisms stated previously, oxygen transfer is a matter of the utmost importance due to poor solubility of oxygen in culture medium [9, 19, 20]. In addition, the diffusive penetration depth of oxygen within tissues in vivo is in the range of only 100 to 200 μm [19]. Thus, maintaining the balance between oxygen delivery to cells and their oxygen consumption is critical, considering this diffusive distance. Therefore, the oxygen tension adjustment is a critical matter in the design process of any bioreactor [21].In applications germane to TE, the oxygen demand will fluctuate each time. During the initial expansion phase, cell density increases with time, and consequently, the overall demand for oxygen also increases. Cells may change from a proliferative state to the state of differentiation during the later stages of the culture. This change has implications for oxygen transfer, since proliferating cells typically have a higher oxygen demand per cell than differentiating cells [2]. Therefore, during the differentiation phase, the oxygen demand is likely to decline gradually.A culture can be aerated by one, or a combination, of the following methods: surface aeration, direct sparging, indirect and/or membrane aeration (diffusion), medium perfusion, increasing the partial pressure of oxygen, and increasing the atmospheric pressure [22]. The transport of dissolved oxygen in a bioreactor occurs in three regions as follows: (a)
bulk fluid phase of the bioreactor (global mass transfer),(b)
from the bulk to the surface of the aggregated cells (internal mass transfer),(c)
through the aggregated cells (external mass transfer).In the first step, at the gas-liquid interface, the rate of oxygen entering the medium is limited by the relatively low solubility of oxygen in aqueous medium. The scalar concentration distributions in the vessel for the global mass transfer depend on the flow field of the vessel and the net rate of consumption or production [23, 24]. Therefore, the oxygen concentration in the fluid experienced by the cells is a result of the balance between the oxygen delivery across the medium layer called the oxygen transfer rate (OTR) and the rate of oxygen consumption by cells named the oxygen uptake rate (OUR). Therefore, the oxygen concentration can be ten times lower as one would anticipate based on the equilibrium within the gas phase [25]. Oxygen availability has vigorous effect on cell culturing kinetics. For instance, increasing the amount of dissolved oxygen (DO) which can be done by increasing the OTR may lead to improve secondary metabolism too. The rate of OTR highly affects the liquid phase mass transfer coefficient (kLa) and, then, the productivity. Therefore, it is essential to determine the DO level in the bioreactor [24, 26–28].There are different methods for assessing the amount of oxygen delivered from the air to the culture environment (Table2). The sulfite system is one in which transformed oxygen content from air to the aqueous solution is determined by means of the oxidation of sodium sulfite to sodium sulfate by oxygen. It could characterize the completing point of the reaction by means of a pH indicator, since the sulfate ions have more acidic activity than the sulfite ones. This method was applied in the presence of cobalt catalyst for determining the OTR and for studying the function of a perfusion bioreactor designed by UTLSE. It was concluded that oxygen delivery is appropriate and the bioreactor readily supplies the minimum required oxygen of the various cells. By considering the calculated OTRmax of 0.012 mol/L/hr and the largest kLa=0.02 L/s, calculations showed that bioreactor supplies the required oxygen of culturing more than 1010 CHO cells in the 80 mL culturing volume [29].


### 2.2. Mechanical Stimulation

The field of TE gradually recognizes the importance of mechanical stimuli (e.g., mechanical compression, mechanical stretch, hydrodynamic pressure, and fluid flow) in the maturation of organs [5]. Mechanical stimulation is one of particular interest for musculoskeletal tissue engineering, cartilage formation, and cardiovascular tissues [30–35]. Mechanical interactions during tissue growth, between different components, that is, cells, water, and scaffold material, can determine whether cells form cell aggregates or disperse throughout the scaffold [36–38]. Selection of optimal physical parameters is complicated by a variety of cell types, scaffolds, forces, applied regimes, and culture medium available.Cells in aggregates are exposed to higher shear stresses than single cells due to their large particle diameter [39]. It is widely accepted that shear stress has a dominant impact on tissue function and viability. Different values are reported for the maximal sustainable shear stress for different types of cells [40, 41]. Indeed, high shear stress on the surface of the scaffold, caused by a flow of fluid, can peel off attached cells and in this condition, tissue growth is significantly slower compared with static cultures.Simply, orientation and function of the cells is affected by fluid flow shear stress. Shear stress is a particular interesting stimulus for mammalian cell cultures because many cell types are responsive to shear stress [42–45]. For instance, it was observed that shear stress affected endothelial cell proliferation and oriented them toward flow direction [31]. There are many qualitative means for investigating fluid flow, which are summarized in Table 3.In addition, the secretion of biological factors by stem cells can be increased by biomechanical forces. Therefore, it is important to acquire an understanding of the mechanisms by which hemodynamic forces are detected and converted into a sequence of biological responses within the cells [46]. For instance, changes in pressure or shear stress induce the rapid release of nitric oxide (NO) from the vascular endothelium [47–49]. Studies at UTLSE in a simple parallel plate flow chamber showed that NO production by Human umbilical vascular endothelial cells (HUVECs) is fluid shear stress rate dependent (data not shown).In fact, the determination of how mechanical forces can be utilized is a challenge for bioreactor design in order to reach the proper environment necessary to produce the desired tissue engineered product. Pulsatile perfusion bioreactors integrated with elastic polymeric scaffolds enhance development and differentiation of small tissue engineered blood vessels [50–53]. Furthermore, custom-designed bioreactors utilizing biaxial strain for the mechanical stimulation of skeletal tissues were developed [54, 55].


### 2.3. Electrical Stimulation

In addition to mechanical stimuli commonly arising in tissue engineering context, electrical stimulation or even combined approaches incorporating electrical/mechanical cues need to be providedin vitro for obtaining an appropriate functionality of engineered tissue. Electrical stimuli are currently mainly applied in the field of cardiac tissue engineering to regenerate the infarcted area after heart failure [56, 57]. Radisic et al. [58] showed that electrical waves in a square form with frequency of 1 Hz and power of 5 V/cm can induce contractile properties in cardiac TE constructs. The disruption of regularity of ions in an electrically affected construct leads to redistribution of charge which can then alter the pH gradient in the media which can be used to tailor specifically enhanced cellular function [59]. Finally, electrical pacing associated with mechanical cues in the culture when applied to the electrospun cardiac constructs resulted in better alignment, elongation, and upregulation of cardiac proteins compared with static cultures [60].


## 2.1. Mass Transfer through Bioreactors

The major obstacle that hinders practical application of 3D cell seeded constructs is mass transfer [5]. After distributing cells throughout porous scaffolds, a key challenge is the maintenance of cell viability, especially within the interior of the construct during prolonged culture. Nutrients, oxygen, and regulatory molecules have to be efficiently transferred from the bulk culture medium to the tissue surfaces (i.e., external mass transfer) as well as to the interior cells of the tissue construct (i.e., internal mass transfer). In addition, metabolites and CO2 are to be removed from the cells within the tissue to the bulk medium. While external mass transfer rates depend primarily on hydrodynamic conditions in a bioreactor, internal mass transfer rates may depend on a combination of diffusion and convection mechanisms (typically induced by medium perfusion or scaffold deformation). Internal mass transfer depends strongly on the scaffold’s structure and porosity, the overall cell or scaffold construct size, and the diffusion rate through the biomaterial [17, 18].Improving the scaffold design will aid efficient mass transfer. For example, a laminar flow within tubular structures located within a scaffold may be beneficial for the generation of large TE constructs but requires the development of advanced bioreactor systems.Amongst mass transfer mechanisms stated previously, oxygen transfer is a matter of the utmost importance due to poor solubility of oxygen in culture medium [9, 19, 20]. In addition, the diffusive penetration depth of oxygen within tissues in vivo is in the range of only 100 to 200 μm [19]. Thus, maintaining the balance between oxygen delivery to cells and their oxygen consumption is critical, considering this diffusive distance. Therefore, the oxygen tension adjustment is a critical matter in the design process of any bioreactor [21].In applications germane to TE, the oxygen demand will fluctuate each time. During the initial expansion phase, cell density increases with time, and consequently, the overall demand for oxygen also increases. Cells may change from a proliferative state to the state of differentiation during the later stages of the culture. This change has implications for oxygen transfer, since proliferating cells typically have a higher oxygen demand per cell than differentiating cells [2]. Therefore, during the differentiation phase, the oxygen demand is likely to decline gradually.A culture can be aerated by one, or a combination, of the following methods: surface aeration, direct sparging, indirect and/or membrane aeration (diffusion), medium perfusion, increasing the partial pressure of oxygen, and increasing the atmospheric pressure [22]. The transport of dissolved oxygen in a bioreactor occurs in three regions as follows: (a)
bulk fluid phase of the bioreactor (global mass transfer),(b)
from the bulk to the surface of the aggregated cells (internal mass transfer),(c)
through the aggregated cells (external mass transfer).In the first step, at the gas-liquid interface, the rate of oxygen entering the medium is limited by the relatively low solubility of oxygen in aqueous medium. The scalar concentration distributions in the vessel for the global mass transfer depend on the flow field of the vessel and the net rate of consumption or production [23, 24]. Therefore, the oxygen concentration in the fluid experienced by the cells is a result of the balance between the oxygen delivery across the medium layer called the oxygen transfer rate (OTR) and the rate of oxygen consumption by cells named the oxygen uptake rate (OUR). Therefore, the oxygen concentration can be ten times lower as one would anticipate based on the equilibrium within the gas phase [25]. Oxygen availability has vigorous effect on cell culturing kinetics. For instance, increasing the amount of dissolved oxygen (DO) which can be done by increasing the OTR may lead to improve secondary metabolism too. The rate of OTR highly affects the liquid phase mass transfer coefficient (kLa) and, then, the productivity. Therefore, it is essential to determine the DO level in the bioreactor [24, 26–28].There are different methods for assessing the amount of oxygen delivered from the air to the culture environment (Table2). The sulfite system is one in which transformed oxygen content from air to the aqueous solution is determined by means of the oxidation of sodium sulfite to sodium sulfate by oxygen. It could characterize the completing point of the reaction by means of a pH indicator, since the sulfate ions have more acidic activity than the sulfite ones. This method was applied in the presence of cobalt catalyst for determining the OTR and for studying the function of a perfusion bioreactor designed by UTLSE. It was concluded that oxygen delivery is appropriate and the bioreactor readily supplies the minimum required oxygen of the various cells. By considering the calculated OTRmax of 0.012 mol/L/hr and the largest kLa=0.02 L/s, calculations showed that bioreactor supplies the required oxygen of culturing more than 1010 CHO cells in the 80 mL culturing volume [29].


## 2.2. Mechanical Stimulation

The field of TE gradually recognizes the importance of mechanical stimuli (e.g., mechanical compression, mechanical stretch, hydrodynamic pressure, and fluid flow) in the maturation of organs [5]. Mechanical stimulation is one of particular interest for musculoskeletal tissue engineering, cartilage formation, and cardiovascular tissues [30–35]. Mechanical interactions during tissue growth, between different components, that is, cells, water, and scaffold material, can determine whether cells form cell aggregates or disperse throughout the scaffold [36–38]. Selection of optimal physical parameters is complicated by a variety of cell types, scaffolds, forces, applied regimes, and culture medium available.Cells in aggregates are exposed to higher shear stresses than single cells due to their large particle diameter [39]. It is widely accepted that shear stress has a dominant impact on tissue function and viability. Different values are reported for the maximal sustainable shear stress for different types of cells [40, 41]. Indeed, high shear stress on the surface of the scaffold, caused by a flow of fluid, can peel off attached cells and in this condition, tissue growth is significantly slower compared with static cultures.Simply, orientation and function of the cells is affected by fluid flow shear stress. Shear stress is a particular interesting stimulus for mammalian cell cultures because many cell types are responsive to shear stress [42–45]. For instance, it was observed that shear stress affected endothelial cell proliferation and oriented them toward flow direction [31]. There are many qualitative means for investigating fluid flow, which are summarized in Table 3.In addition, the secretion of biological factors by stem cells can be increased by biomechanical forces. Therefore, it is important to acquire an understanding of the mechanisms by which hemodynamic forces are detected and converted into a sequence of biological responses within the cells [46]. For instance, changes in pressure or shear stress induce the rapid release of nitric oxide (NO) from the vascular endothelium [47–49]. Studies at UTLSE in a simple parallel plate flow chamber showed that NO production by Human umbilical vascular endothelial cells (HUVECs) is fluid shear stress rate dependent (data not shown).In fact, the determination of how mechanical forces can be utilized is a challenge for bioreactor design in order to reach the proper environment necessary to produce the desired tissue engineered product. Pulsatile perfusion bioreactors integrated with elastic polymeric scaffolds enhance development and differentiation of small tissue engineered blood vessels [50–53]. Furthermore, custom-designed bioreactors utilizing biaxial strain for the mechanical stimulation of skeletal tissues were developed [54, 55].


## 2.3. Electrical Stimulation

In addition to mechanical stimuli commonly arising in tissue engineering context, electrical stimulation or even combined approaches incorporating electrical/mechanical cues need to be providedin vitro for obtaining an appropriate functionality of engineered tissue. Electrical stimuli are currently mainly applied in the field of cardiac tissue engineering to regenerate the infarcted area after heart failure [56, 57]. Radisic et al. [58] showed that electrical waves in a square form with frequency of 1 Hz and power of 5 V/cm can induce contractile properties in cardiac TE constructs. The disruption of regularity of ions in an electrically affected construct leads to redistribution of charge which can then alter the pH gradient in the media which can be used to tailor specifically enhanced cellular function [59]. Finally, electrical pacing associated with mechanical cues in the culture when applied to the electrospun cardiac constructs resulted in better alignment, elongation, and upregulation of cardiac proteins compared with static cultures [60].


## 3. Comparison between Different Types of TE Bioreactors Based on Engineering Parameters

Bioreactors that are currently widely used in TE are static and mixed flasks, rotating wall, and perfusion bioreactors. These bioreactors offer three distinct flow conditions (static, turbulent, and laminar), and hence a different rate of nutrient supply to the surface of tissue construct [24]. They also differ in mass transfer and shear stress rates experienced by the cultured cells. Table 1 compares engineering parameters of different TE bioreactors.Table 1
Comparison of engineering parameters in different TE bioreactors.
Bioreactor type
General descriptions
Mass transfer mechanism
Shear stress
Special usage
Tissue
Considerations
Static culture
Batch culture with no flow of nutrient
Diffusion (high)
Very low
Cell proliferation
—
Homogeneous structure of cell constructs and nutrient diffusion limitations
Magnetically stirring of medium
Convection (high)
High
Dynamic seeding of scaffolds
Cartilage
Appropriate scaffold and balance between increasing mass transfer and modulating shear stresses
Rotating at a speed so the constructs in the reactor are maintained “stationary” in a state of continuous free fall
Convection (high)
Low
Tissue constructs which need dynamic laminar flow
Cartilage, bone and skin
Operating conditions (e.g., speed of rotating) especially for growing large tissue mass
Flow of medium over or through a cell population or bed of cells
Convection (moderate) and diffusion (high)
Moderate
Tissues physicochemicaly and environmentally relevant to human tissues
Epithelial cells, intestinal, bone, cartilage, and arteries
Seeding and attachment of human cells especially within the scaffold bodyTable 2
Methods of measuring oxygen transfer rate.
Measurement method
Basis of the method
Pros
Cons
Ref.
Sulfite oxidation method
Monitoring pH changes during the oxidation of sodium sulfite to sodium sulfate controlled by oxygen depletion rate
(i) Simple and low cost(ii) Can be used for the determination of the interfacial area between gas and liquid  (iii) Being accurate for minivolumes of less than 1 mL
(i) The kinetics of the homogeneous catalytic chemical reaction should be known(ii) Limited accuracy by visually determination of color change (iii) High salt concentration (usually 0.5 mol · L−1) reduces the maximum solubility of oxygen (iv) Not appropriate in large scale bioreactors(v) High surface tension causes the underestimation of potentially achievable OTR
[72–75]
Dynamic method
Monitoring the dissolved O2 concentration during the aeration of the system
(i) Consistent measurement(ii) Does not depend on a zero or reference measurement
(i) Requiring a rapidly responsive, sterilizable, dissolved oxygen probe(ii) Limited application for minititerplates (MTPs)  (iii) Not costly favorable
[76, 77]
Optical method
Monitoring the color changes during the sulfite oxidation reaction using a pH sensitive dye (e.g., bromothymol blue)
No need for pH electrode which frequently disturbs the hydrodynamics
Not accurate due to being time dependent of the color shift which indicated the time of the oxidation reaction
[78–80]
Gassing-out method
MonitoringkLa by direct measurement of the rate of increasing dissolved oxygen concentration, after neutralizing the system by flushing nitrogen through the vessel to achieve an oxygen-free solution
(i) Can be applied to different media (for investigating the effect of media composition on oxygen mass transfer)(ii) Does not involve chemical reactions that could impact the measurement precision and the liquid film resistance
A nonrespiring system which is not in exact correspondence to real culturing conditions
[28, 81, 82]
RAMOS (intermittent online) method
Monitoring OTR by periodically repeating an automated measuring cycle composed of a measuring phase and a rinsing phase
(i) Online monitoring system(ii) Can be used simultaneously for measuring OTR in 6–12 parallel vessels
(i) Large amount of sample required for measuring(ii) Not applicable for small volumes (microliters)
[83–85]
Exhaust gas analyzer (continuous online) method
Calculating the OTR by specifying the oxygen concentration difference between the inlet gas stream (O2, in) and the outlet gas stream (O2, out) using magnetomechanical exhaust gas analyzer (EGA)
(i) Continuous method(ii) Can be used to measure OTR in one to five parallel culture vessels
Only applicable in high volume bioreactors
[86, 87]
Respirometer (offline) method
Measuring of decreasing dissolved oxygen concentration with time after aerating the culture vessel
Can be used for bioreactors of any shape
Difficult manual handling
[88, 89]Table 3
Methods of measuring flow.
Measurement method
Basis of the method
Pros
Cons
Ref.
Particle image velocimetry (PIV), including micro-PIV (μPIV)
Monitoring the displacement of small seeded particles in a region of interest of fluid medium via double-pulsed laser beam
(i) Can be used through anin vitroinvestigation  (ii) Noninvasive method  (iii) High spatial resolution  (iv) Simultaneously determination of velocities of two different phases without disturbing the flow
(i) Almost impossible forin vivoexperiments (ii) Requiring undistorted optical access to the area of interest for both an excitation laser and an imaging system  (iii) Limited of temporal resolution  (iv) Requiring appropriate particles to eliminate the differences between solid particles and local fluid velocities
[90–94]
Holographic PIV (HPIV)
Record the particle image field using a reference beam to project the hologram, followed by a 2D plane detector moved through the projected hologram
(i) Can also record a 3D instantaneous flow field(ii) Being user friendly
(i) Reduction of speckle noise(ii) Not handling huge quantities of data  (iii) Cannot extract 3D velocity in presence of large gradients/fluctuations (iv) Complexity of system (v) Requiring large depth of focus that affects the measurement accuracy
[93–96]
Particle tracking velocity (PTV)
Measuring particle velocities using video camera recording
(i) Easily determination of even small displacement of particles without confusing them with neighboring ones(ii) Measurement of velocity at the location of a particle, without requiring an averaging over a grid (compared to PIV)
(i) Requiring many individual particles to be reconstructed in space and identified in successive frames(ii) Lower spatial resolution  (iii) Time consuming
[95–98]
Laser Doppler anemometry (LDA) or laser Doppler velocimetry (LDV)
Measuring of scattered laser light by particles that pass through a series of interference fringes (a pattern of light and dark surfaces)
(i) High spatial and temporal resolution (typically in the order of 1 kHz)(ii) Nonintrusive method  (iii) No calibration required (iv) Recording one, two, or three velocity components simultaneously (v) Also applicable in reversing flows
(i) Cannot simultaneously measure the velocities of different phases(ii) Time consuming  (iii) Difficult to analyzing the discrete data stream from the flow
[94–97, 99]
Acoustic Doppler velocimeter (ADV)
Measuring the velocity of particles in a remote sampling volume based on the Doppler  shift effect using one transmitter and three receivers
Simultaneously recording nine values with each sample: three velocity components, three signal strength values, and three correlation values
(i) Only suitable for flow conditions with relatively low turbulence level(ii) Required postprocessing of data
[99, 100]
Holographic correlation velocimetry (HCV)
Measuring 3D velocity fields of a fluid at high speed combining a correlation-based approach with in-line holography
(i) Very efficient with regard to the use of light, as it does not rely on side scattering(ii) Very high quality system at a modest cost  (iii) Appropriate for high-speed flows and low exposure times (iv) Simple calibration  (v) Using relatively low powered lasers (vi) Direct measurement of the velocity field at all depth locations  (vii) Nonintrusive technique especially in cell culture procedures
Requiring a separate method to extract velocity data from holographic images
[94, 95]Althoughstatic culture is simply designed and operated, there are nutrient diffusion limitations with large constructs since both external and internal mass transfer are undertaken by diffusion [9, 11, 22]. Statically cultured constructs often have a heterogeneous structure and composition, including a necrotic central region and dense layers of viable cells encapsulating the construct outer edge [17]. This condition appears due to concentration gradients, with local depletion of nutrients and accumulation of waste materials [18].Cell survival and assembly on many surfaces of engineered tissues can be improved by construct cultivation instirred flask bioreactors [61–65]. Within such flasks, scaffolds are attached to needles hanging from the lid of the flask for dynamic seeding. Convective flow, generated by a magnetic stirrer bar, allows continuous mixing of the medium surrounding the construct [24]. This environment improves nutrient diffusion and promotes cell proliferation throughout the constructs in comparison to static condition. However, the shear forces acting on the constructs are heterogeneous, which prevents homogenous tissue development [11].In order to enhance external mass transfer under a laminar flow condition, the tissue engineered constructs can be cultivated inrotating wallbioreactors [63, 65–67]. Dynamic laminar flow of rotating bioreactors generally improves properties of the peripheral tissue layer. Also, in such bioreactors, no fibrous capsule is formed, but the limitations of the diffusional transfer of oxygen to the construct interior still remain [24]. As compared to the turbulent flow within stirred flasks, the dynamic laminar flow in rotating wall vessels contributes to reduced levels of shear stress experienced by cells on the construct. Amongst other, this aides the formation of cartilaginous tissues containing higher amounts of more uniformly distributed glycosaminoglycans (GAG) and collagen [18, 68].In addition, a key point to note is that convective transfer around and through an engineered tissue at the proper flow rate can dissipate gradients of nutrients and maintain tissue mass [69]. In a novel strategy, Yu et al. [70] mixed microspheres of different densities in order to vary and modify flow velocity within a scaffold through the rotating wall bioreactor. Compared to static three-dimensional controls, culturing rat primary calvarial cells under dynamic flow conditions in a rotating system reveals a more uniform distribution of cells in the scaffold interior and also enhances phenotypic protein expression and recuperates mineralized matrix synthesis. In addition, Zhang et al. [71] recognized that scaffolds seeded by human fetal mesenchymal stem cell (hfMSC) reached cellular confluence earlier with greater cellularity and also conserved high cellular viability in the core of them compared to a static culture.Perfusionbioreactors are used in order to force culture medium through the pores of solid porous 3D scaffolds, thereby enhancing nutrient transport and providing mechanical stimuli to the cells (e.g., [63, 65, 101–104]). In such systems, oxygen and nutrients are supplied to the construct interior by both diffusion and convection. The flow rate can be optimized with respect to the limiting nutrient, which is mostly oxygen due to its low solubility in culture medium [24, 105]. Perfusion of chondrocyte-seeded scaffolds was reported to elevate GAG synthesis and retention within the extracellular matrix (ECM) [106], as well as a uniform distribution of viable human chondrocytes. A perfusion system can provide a well-defined physicochemical culture environment which has great potential to generate cartilage grafts [68] or vascular grafts of clinically relevant size [107, 108]. Bioreactors that perfuse the culture medium directly through the pores of a scaffold enhance mass transfer rate not only at the construct periphery but also within the internal pores. This can potentially eliminate mass transfer limitations. Perfusion bioreactors can offer greater control of mass transfer than other conventional systems but the potential for flow to follow a preferential path through the construct still remains a problem. This phenomenon happens particularly for scaffolds with a wide pore size distribution and nonuniformly developing tissues, leaving some regions poorly nourished, while others are perfused strongly.It is confirmed that cartilage-like matrix synthesis by chondrocytes, chondrocyte growth, and differentiation and deposition of mineralized matrix by bone cells are enhanced by direct perfusion bioreactors [109]. It is worth to notice that the flow rate in the microenvironment of cells is to a great extent responsible for the changes of medium perfusion. Therefore, to optimize a perfusion bioreactor for tissue engineering applications, the balance between the extent of nutrient supply, the transport of metabolites to and away from cells, and the fluid-induced shear stress effects on cells located at the surface and in the porous structures of the scaffold should be considered [17, 21, 105].In order to gain a better understanding on how physical factors modulate tissue development, it is necessary to integrate bioreactor studies with quantitative analyses and computational modeling of changes in mass transfer and physical forces experienced by cells [17].


## 4. Mathematical Modeling of Engineering Parameters

Mathematical modeling in terms of fundamental physical and biochemical mechanisms can be used to justify experimental results and determine future research directions [110–113]. Relatively few mathematical modeling studies have focused on bioreactor culture of cell-seeded porous structures for TE [114, 115].In the first stage, numerical simulation plays an important role in prediction of the global dynamic response in different parts of bioreactors. Moreover, numerical evaluation provides insight into local hydrodynamic changes in tissue constructs in order to generate quantitative anticipation of the tissue development within a bioreactor system [116]. Finally, with the aid of recently available computational tools, variables (e.g., flow fields of a particular bioreactor design [117, 118], incorporation of the mechanics of the scaffold material [119], and the sufficiency of bioreactor cultures [117, 120, 121], shear stresses and mass transfer in scaffold-containing bioreactors [118, 122]) can be estimated.As an example, Sengers et al. [3] in their review concentrated on the contribution of computational modeling as a framework to obtain an integrated understanding of key processes including nutrient transfer, matrix formation, dynamics of cell population, cell attachment and migration, and local mutual interactions between cells.


### 4.1. Nutrient and Mass Transfer

The amount of delivered oxygen is a significant factor in designing the cell culture bioreactors. One major obstacle preventing proper understanding of oxygen tension in TE constructs is a lack of mathematical models that can predict which parameters are beneficial for avoiding oxygen limitation and increasing oxygen diffusion across serial resistances [114, 118, 121]. This problem was resolved at UTLSE by applying traditional convective mass transfer models combined with Maxwell-Stefan diffusion mass transfer equation.The reliability of the model can be examined by comparing the model results obtained with sulfite experiments done with four geometries of shake flasks (Figure1).Figure 1
Comparison between unsteady state model and experimental results for the partial pressure of oxygen in the headspace of the ventilation flasks f1, f4, f7, f9 (sterile plug dimensions inf1<f4<f7<f9) is obtained for the fermentation of C. glutamicumDM 1730 on 10 g/L glucose and 21 g/L MOPS (VL=10 mL, n=400 rpm, T=30°C, do=5 cm, Yx/s=0.48, Yx/o2=53 g/mol, RQ=1 where do, VL, Yx/s, Yx/o2, and RQ are shaking diameter, filling volume, yield of biomass with respect to substrate, yield of biomass with respect to oxygen, and respiration quotient, resp.).As can be seen from Figure1, the value for the pO2 is 0.2095 bar at the onset of the experiment. Oxygen partial pressure decreases over time as the chemical reaction proceeds. The flasks with the greater sterile plug dimensions represent lower mass transfer rates which resulted from hindered diffusion. This gives rise to a lower partial pressure of oxygen [84, 85, 123, 124].Yan et al. [114] developed a novel mathematical model to represent the glucose and oxygen distribution and the cell growth in a 3D cell-scaffold construct in a perfusion bioreactor. Numerical methods are employed to solve the equations involved, with a focus on investigating the effect of various factors such as culturing time, porosity, and flow rate, which are controllable in the scaffold fabrication and culturing process, on cell cultures.Along these lines, Pisu et al. [125] proposed an improved description of oxygen consumption and GAG production by bovine chondrocytes, which is thoroughly related to cellular metabolism. The latter is simulated through appropriate population balance models which include cellular anabolic and catabolic rates.Abdollah and Das [126] presented a general modeling framework to characterize nutrient (oxygen and glucose) transfer in a hollow fiber membrane bioreactor (HFMB) for bone tissue growth. The framework relied on solving coupled Navier-Stokes and the Maxwell-Stefan convection-diffusion-reaction equations. It is indicated that due to multicomponent interactions, mass severe transfer limitations may arise severely when inlet concentration of nutrients, molecular size of the solutes, and wall membrane thickness are increased.Rivera-Solorio and Kleis [23] used a mathematical model to investigate the local mass transfer of dissolved oxygen to the surface of freely suspended cell aggregates in a bioreactor operating in microgravity. They simulated the mass transfer in systems in which cultured cells are attached to small microcarriers in a rotating bioreactor in simulated and real microgravity.Also, Yu et al. [127] evaluated oxygen transfer in a microbioreactor for animal cell suspension culture using the commercial software Fluent. They proposed two correlations in order to calculate the liquid-phase oxygen transfer coefficient and the minimum oxygen concentration in a microbioreactor, to provide insight into choosing the proper operating parameters in animal cell culture.


### 4.2. Fluid Flow

To better realize the effect of fluid flow during tissue regeneration, a number of studies using computational fluid dynamic (CFD) have been accomplished [128–134]. These CFD studies revealed detailed profile of pressure, velocity, flow fields, shear stresses, and oxygen transfer in tissue culturing chambers of various bioreactor designs. This is very useful for the design optimization of internal geometric configurations of bioreactors [116].Lawrence et al. [16] explored the effect of reactor geometry on flow fields using the computational fluid dynamics software Comsol Multiphysics 3.4. The Brinkman equation was used to model the permeability characteristics within the chitosan porous structure. Results showed significant increase in pressure with reduction in pore size, which could limit the fluid flow and nutrient transport.Subsequently, flow characteristics are analyzed using either Darcy’s equation [135] or the Brinkman equation considered as an extension of Darcy’s equation. The Brinkman equation accounts for both viscous and drag forces in the porous medium. It can be reduced to either Navier-Stokes equation or Darcy’s law if forces become dominant. The Brinkman equation is as follows [16]:
(1)μ∇2us-μkus=∇p,∇us=0,
where k the permeability of the porous medium, us denotes the fluid superficial velocity vector, p the fluid pressure, and μ is the effective viscosity in the porous medium. Nonporous sections of a bioreactor were modeled as incompressible Navier-Stokes regions. The permeability of the porous medium (k) is a geometric characteristic of the porous structure at several length scales. The Navier-Stokes equation together with continuity equation provides an essential tool to investigate the mechanical behavior of fluid in shaken bioreactors.Our research center began intensive studies of hydrodynamics applying CFD in shaken microbioreactors including 24-well plates, shaken at various shaking frequencies. For instance, schematics of the liquid phase fraction and radial velocity profiles at 0.7 cm distance from the bottom plane are shown in Figures2 and 3 at shaking frequency of 200 rpm.Figure 2
Radial velocity distribution in a shaken 24-wells bioreactor that illustrates inhomogeneous map of radial velocity at the interface of liquid and air.Figure 3
Volume fraction distribution in a shaken 24-wells bioreactor that allows accurate prediction of gas-liquid interface area within the shaking bioreactor.Output data from phase fraction simulation gave insight in the gas-liquid interfacial surface area, which then helps to determine the exact mass transfer coefficient (kLa) values. Furthermore, the mean radial velocity at the interface provides a guideline for obtaining wall shear stress within the entire domain of the bioreactor.The outcomes of shear stress simulation experiments confirm that the magnitude of this mechanical quantity rarely exceeds 1 Pa at the bottom of the plate. This value of shear stress can be withstood by most mammalian cells [136].In addition, a novel flow chamber was developed in our research center to assess the effect of fluid flow on the efficiency of nutrient transport and the endothelial cell stability. This chamber exhibits the major features of a standard parallel flow bioreactor in which a circular silicon scaffold is centrally located. To accomplish this, CFD was used to discretize mathematical equations. Energy dissipation rate (EDR) and shear stress were plotted versus position in the cylinder at a flow rate of 75 mL/min (Figure4).Energy dissipation rate (a) and shear stress distribution (b) versus radial position on a scaffold with radius of 1 cm that obviously represents safe generated shear stress on the scaffold for mammalian cell cultures.
(a)
(b)For either plots of EDR and shear stress, a symmetrical pattern reveals that a homogeneous distribution of these mechanical characteristics of flow exists. However, for EDR data, some values deviate slightly between both sides of the cylinder because of a flow maldistribution which is due to a mild turbulence over the scaffold.After completion of simulations, cell experiments were conducted for a 1 hr period. These experiments showed that at a volumetric flow rate of 75 mL/min, the cell viability and stability are maintained, but no specific cell orientation is present (Figure5).Schematics of cell morphology (a) before (b) after initiation of flow indicating flow assisted elongation of cells under continuous flow.
(a)
(b)In general, computational fluid dynamics applications in bioreactor development can be extended to new designs such as a novel perfusion bioreactor developed at UTLSE.In order to assess mechanical as well as oxygen characteristics of this novel perfusion bioreactor, scientists at UTLSE used CFD to determine fluid velocity as well as pathlines features of the flow. Figure6 further describes the computational attributes of the system.Demonstration of path lines to track the fluid particles within the bioreactor (a) and velocity magnitude to evaluate maximal shear stress in order to optimize shear stress distribution (b) in a perfusion bioreactor belonging to UTLSE.
(a)
(b)The initial approximation of fluid flow dynamics attained with CFD is extremely beneficial in reducing time and costs of development of the bioreactor [29].Yu et al. [137] applied a CFD model to simulate the flow and oxygen concentration fields in a microbioreactor, in which a small magnetic bar was placed in a culture well to enhance the medium mixing. It was found that the hydrodynamic environment could be appropriate for animal cell culture when the microbioreactor operated at a stirrer rotating speed of 300 rpm and working volume of 4 mL.Bilgen and Barabino [138] took advantage of CFD modeling to characterize the complicated hydrodynamic environment of a wavy-walled bioreactor applied for cultivation of tissue-engineered cartilage structures. They also analyzed the changes in the flow field when TE constructs are present in the bioreactor. The flow-induced shear stress experienced by engineered constructs cultivated in the wavy walled bioreactor was much lower than that of spinner flask. The radial or axial position of the constructs can modulate this shear stress.Lawrence et al. [16] used rectangular and circular bioreactors with three different inlet and outlet paradigms. By the use of CFD, geometries were simulated in two cases, with and without the presence of a porous structure. Residence time distribution analysis using the change of a tracer within a bioreactor revealed nonideal fluid distribution characteristics. The result represented a significant increase in pressure with a decrease in pore size, which could lead to low fluid flow and nutrient transfer limitation.


### 4.3. Cell Growth, Proliferation, and Viability

Chung et al. [111] developed a mathematical model for the static culture of cells grown on porous scaffolds. Results showed that the overall cell growth allows cells to spread more uniformly, while it prevents cells from competing for nutrients at the same site. They then described a mathematical model to examine the effects of medium perfusion on the cell-scaffold constructs [120]. They proposed a three-layer model, highlighting the enhancement of cell growth by medium perfusion. The model is quite detailed, involving a cell construct sandwiched between two fluid layers in order to mimic the culturing environment of direct perfusion. Although the model is valuable in developing engineered cell constructs, the enormous number of essential formulas and boundary conditions make the model cumbersome. Therefore, a compact mathematical model was to describe cell growth within a porous scaffold under direct perfusion. Neglecting the two fluid regions sandwiching the scaffold, the model contains only the scaffold region for computational purposes [110].Shakeel [118] in his thesis developed a model which describes the key features of the tissue engineering processes such as the interaction between the cell growth, variation of material porosity, flow of fluid through the material, and delivery of nutrients to the cells. The fluid flow through the porous scaffold and the delivery of nutrients to the cells was modeled by Darcy’s law and the advection-diffusion equations, respectively. For modeling the cell growth, a nonlinear reaction diffusion system was used. The results show that the distribution of cells and total cell number in the scaffold depends on the initial cell density and porosity of the scaffold.A unique set of dynamical mathematical models was used to accurately predict metabolite and cell concentration in an aerated miniaturized shaking bioreactor at UTLSE. The major advantage of such a mathematical model is that it provides a robust tool to solve complicated oxygen transfer which unfavorably hampers metabolite production in bioprocesses.The combination of equations which make a link between liquid phase oxygen concentration and rate of oxygen uptake with governing equations of cell concentration should be primarily solved to attain oxygen transfer rate (OTR) with respect to the course of time.Figure6 suggests that as the model microorganism is undergoing accelerating growth, the oxygen transfer rate increases until the growth is inhibited and consequently the OTR falls down significantly. Figure 7 illustrates the comparison between the model and experimental results for a model microorganism, which suggest that a minor discrepancy between their model and the results exist [139].Figure 7
Comparison of OTR resulting from model and from experiments for a specific aerobic microorganism. The plot provides evidence of the proximity of OTR values between experimental and simulation results and of the efficacy of the simulation efforts.


## 4.1. Nutrient and Mass Transfer

The amount of delivered oxygen is a significant factor in designing the cell culture bioreactors. One major obstacle preventing proper understanding of oxygen tension in TE constructs is a lack of mathematical models that can predict which parameters are beneficial for avoiding oxygen limitation and increasing oxygen diffusion across serial resistances [114, 118, 121]. This problem was resolved at UTLSE by applying traditional convective mass transfer models combined with Maxwell-Stefan diffusion mass transfer equation.The reliability of the model can be examined by comparing the model results obtained with sulfite experiments done with four geometries of shake flasks (Figure1).Figure 1
Comparison between unsteady state model and experimental results for the partial pressure of oxygen in the headspace of the ventilation flasks f1, f4, f7, f9 (sterile plug dimensions inf1<f4<f7<f9) is obtained for the fermentation of C. glutamicumDM 1730 on 10 g/L glucose and 21 g/L MOPS (VL=10 mL, n=400 rpm, T=30°C, do=5 cm, Yx/s=0.48, Yx/o2=53 g/mol, RQ=1 where do, VL, Yx/s, Yx/o2, and RQ are shaking diameter, filling volume, yield of biomass with respect to substrate, yield of biomass with respect to oxygen, and respiration quotient, resp.).As can be seen from Figure1, the value for the pO2 is 0.2095 bar at the onset of the experiment. Oxygen partial pressure decreases over time as the chemical reaction proceeds. The flasks with the greater sterile plug dimensions represent lower mass transfer rates which resulted from hindered diffusion. This gives rise to a lower partial pressure of oxygen [84, 85, 123, 124].Yan et al. [114] developed a novel mathematical model to represent the glucose and oxygen distribution and the cell growth in a 3D cell-scaffold construct in a perfusion bioreactor. Numerical methods are employed to solve the equations involved, with a focus on investigating the effect of various factors such as culturing time, porosity, and flow rate, which are controllable in the scaffold fabrication and culturing process, on cell cultures.Along these lines, Pisu et al. [125] proposed an improved description of oxygen consumption and GAG production by bovine chondrocytes, which is thoroughly related to cellular metabolism. The latter is simulated through appropriate population balance models which include cellular anabolic and catabolic rates.Abdollah and Das [126] presented a general modeling framework to characterize nutrient (oxygen and glucose) transfer in a hollow fiber membrane bioreactor (HFMB) for bone tissue growth. The framework relied on solving coupled Navier-Stokes and the Maxwell-Stefan convection-diffusion-reaction equations. It is indicated that due to multicomponent interactions, mass severe transfer limitations may arise severely when inlet concentration of nutrients, molecular size of the solutes, and wall membrane thickness are increased.Rivera-Solorio and Kleis [23] used a mathematical model to investigate the local mass transfer of dissolved oxygen to the surface of freely suspended cell aggregates in a bioreactor operating in microgravity. They simulated the mass transfer in systems in which cultured cells are attached to small microcarriers in a rotating bioreactor in simulated and real microgravity.Also, Yu et al. [127] evaluated oxygen transfer in a microbioreactor for animal cell suspension culture using the commercial software Fluent. They proposed two correlations in order to calculate the liquid-phase oxygen transfer coefficient and the minimum oxygen concentration in a microbioreactor, to provide insight into choosing the proper operating parameters in animal cell culture.


## 4.2. Fluid Flow

To better realize the effect of fluid flow during tissue regeneration, a number of studies using computational fluid dynamic (CFD) have been accomplished [128–134]. These CFD studies revealed detailed profile of pressure, velocity, flow fields, shear stresses, and oxygen transfer in tissue culturing chambers of various bioreactor designs. This is very useful for the design optimization of internal geometric configurations of bioreactors [116].Lawrence et al. [16] explored the effect of reactor geometry on flow fields using the computational fluid dynamics software Comsol Multiphysics 3.4. The Brinkman equation was used to model the permeability characteristics within the chitosan porous structure. Results showed significant increase in pressure with reduction in pore size, which could limit the fluid flow and nutrient transport.Subsequently, flow characteristics are analyzed using either Darcy’s equation [135] or the Brinkman equation considered as an extension of Darcy’s equation. The Brinkman equation accounts for both viscous and drag forces in the porous medium. It can be reduced to either Navier-Stokes equation or Darcy’s law if forces become dominant. The Brinkman equation is as follows [16]:
(1)μ∇2us-μkus=∇p,∇us=0,
where k the permeability of the porous medium, us denotes the fluid superficial velocity vector, p the fluid pressure, and μ is the effective viscosity in the porous medium. Nonporous sections of a bioreactor were modeled as incompressible Navier-Stokes regions. The permeability of the porous medium (k) is a geometric characteristic of the porous structure at several length scales. The Navier-Stokes equation together with continuity equation provides an essential tool to investigate the mechanical behavior of fluid in shaken bioreactors.Our research center began intensive studies of hydrodynamics applying CFD in shaken microbioreactors including 24-well plates, shaken at various shaking frequencies. For instance, schematics of the liquid phase fraction and radial velocity profiles at 0.7 cm distance from the bottom plane are shown in Figures2 and 3 at shaking frequency of 200 rpm.Figure 2
Radial velocity distribution in a shaken 24-wells bioreactor that illustrates inhomogeneous map of radial velocity at the interface of liquid and air.Figure 3
Volume fraction distribution in a shaken 24-wells bioreactor that allows accurate prediction of gas-liquid interface area within the shaking bioreactor.Output data from phase fraction simulation gave insight in the gas-liquid interfacial surface area, which then helps to determine the exact mass transfer coefficient (kLa) values. Furthermore, the mean radial velocity at the interface provides a guideline for obtaining wall shear stress within the entire domain of the bioreactor.The outcomes of shear stress simulation experiments confirm that the magnitude of this mechanical quantity rarely exceeds 1 Pa at the bottom of the plate. This value of shear stress can be withstood by most mammalian cells [136].In addition, a novel flow chamber was developed in our research center to assess the effect of fluid flow on the efficiency of nutrient transport and the endothelial cell stability. This chamber exhibits the major features of a standard parallel flow bioreactor in which a circular silicon scaffold is centrally located. To accomplish this, CFD was used to discretize mathematical equations. Energy dissipation rate (EDR) and shear stress were plotted versus position in the cylinder at a flow rate of 75 mL/min (Figure4).Energy dissipation rate (a) and shear stress distribution (b) versus radial position on a scaffold with radius of 1 cm that obviously represents safe generated shear stress on the scaffold for mammalian cell cultures.
(a)
(b)For either plots of EDR and shear stress, a symmetrical pattern reveals that a homogeneous distribution of these mechanical characteristics of flow exists. However, for EDR data, some values deviate slightly between both sides of the cylinder because of a flow maldistribution which is due to a mild turbulence over the scaffold.After completion of simulations, cell experiments were conducted for a 1 hr period. These experiments showed that at a volumetric flow rate of 75 mL/min, the cell viability and stability are maintained, but no specific cell orientation is present (Figure5).Schematics of cell morphology (a) before (b) after initiation of flow indicating flow assisted elongation of cells under continuous flow.
(a)
(b)In general, computational fluid dynamics applications in bioreactor development can be extended to new designs such as a novel perfusion bioreactor developed at UTLSE.In order to assess mechanical as well as oxygen characteristics of this novel perfusion bioreactor, scientists at UTLSE used CFD to determine fluid velocity as well as pathlines features of the flow. Figure6 further describes the computational attributes of the system.Demonstration of path lines to track the fluid particles within the bioreactor (a) and velocity magnitude to evaluate maximal shear stress in order to optimize shear stress distribution (b) in a perfusion bioreactor belonging to UTLSE.
(a)
(b)The initial approximation of fluid flow dynamics attained with CFD is extremely beneficial in reducing time and costs of development of the bioreactor [29].Yu et al. [137] applied a CFD model to simulate the flow and oxygen concentration fields in a microbioreactor, in which a small magnetic bar was placed in a culture well to enhance the medium mixing. It was found that the hydrodynamic environment could be appropriate for animal cell culture when the microbioreactor operated at a stirrer rotating speed of 300 rpm and working volume of 4 mL.Bilgen and Barabino [138] took advantage of CFD modeling to characterize the complicated hydrodynamic environment of a wavy-walled bioreactor applied for cultivation of tissue-engineered cartilage structures. They also analyzed the changes in the flow field when TE constructs are present in the bioreactor. The flow-induced shear stress experienced by engineered constructs cultivated in the wavy walled bioreactor was much lower than that of spinner flask. The radial or axial position of the constructs can modulate this shear stress.Lawrence et al. [16] used rectangular and circular bioreactors with three different inlet and outlet paradigms. By the use of CFD, geometries were simulated in two cases, with and without the presence of a porous structure. Residence time distribution analysis using the change of a tracer within a bioreactor revealed nonideal fluid distribution characteristics. The result represented a significant increase in pressure with a decrease in pore size, which could lead to low fluid flow and nutrient transfer limitation.


## 4.3. Cell Growth, Proliferation, and Viability

Chung et al. [111] developed a mathematical model for the static culture of cells grown on porous scaffolds. Results showed that the overall cell growth allows cells to spread more uniformly, while it prevents cells from competing for nutrients at the same site. They then described a mathematical model to examine the effects of medium perfusion on the cell-scaffold constructs [120]. They proposed a three-layer model, highlighting the enhancement of cell growth by medium perfusion. The model is quite detailed, involving a cell construct sandwiched between two fluid layers in order to mimic the culturing environment of direct perfusion. Although the model is valuable in developing engineered cell constructs, the enormous number of essential formulas and boundary conditions make the model cumbersome. Therefore, a compact mathematical model was to describe cell growth within a porous scaffold under direct perfusion. Neglecting the two fluid regions sandwiching the scaffold, the model contains only the scaffold region for computational purposes [110].Shakeel [118] in his thesis developed a model which describes the key features of the tissue engineering processes such as the interaction between the cell growth, variation of material porosity, flow of fluid through the material, and delivery of nutrients to the cells. The fluid flow through the porous scaffold and the delivery of nutrients to the cells was modeled by Darcy’s law and the advection-diffusion equations, respectively. For modeling the cell growth, a nonlinear reaction diffusion system was used. The results show that the distribution of cells and total cell number in the scaffold depends on the initial cell density and porosity of the scaffold.A unique set of dynamical mathematical models was used to accurately predict metabolite and cell concentration in an aerated miniaturized shaking bioreactor at UTLSE. The major advantage of such a mathematical model is that it provides a robust tool to solve complicated oxygen transfer which unfavorably hampers metabolite production in bioprocesses.The combination of equations which make a link between liquid phase oxygen concentration and rate of oxygen uptake with governing equations of cell concentration should be primarily solved to attain oxygen transfer rate (OTR) with respect to the course of time.Figure6 suggests that as the model microorganism is undergoing accelerating growth, the oxygen transfer rate increases until the growth is inhibited and consequently the OTR falls down significantly. Figure 7 illustrates the comparison between the model and experimental results for a model microorganism, which suggest that a minor discrepancy between their model and the results exist [139].Figure 7
Comparison of OTR resulting from model and from experiments for a specific aerobic microorganism. The plot provides evidence of the proximity of OTR values between experimental and simulation results and of the efficacy of the simulation efforts.


## 5. Conclusion

Engineering parameters occurring in a bioreactor are of equal importance as biological parameters and should therefore be investigated thoroughly in order to optimize outcomes of TE strategies. Internal and external mass transfer (e.g., oxygen, nutrient, and waste materials transfer) as well as mechanical stimulation (e.g., fluid flow and shear stress) should be monitored online. Between different types of bioreactors, the “Perfusion Bioreactor” is the most convenient for animal cell cultures on a solid porous scaffold. Perfusion bioreactors offer both convection and diffusion and can provide nearlyin vivo physiochemical and environmentally stimuli for engineered tissue constructs.The operating conditions for diverse bioreactors can be very different per experiment. Therefore, it is essential to use mathematical equations and modeling techniques to simulate the optimal operating conditions in order to predict the best outcomes. Using the Brinkman equation along with powerful CFD codes can provide for investigating the effects of engineering parameters on the outcome of biological experiments. In this way, the efficacy of bioreactors, which is very low at present, can be optimized.



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*Source: 762132-2013-08-05.xml*