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Статті в журналах з теми "Integrative bioprocess"

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Автор: Grafiati

Опубліковано: 10 грудня 2022

Оновлено: 28 січня 2023

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1

Delvigne, Frank, Ralf Takors, Rob Mudde, Walter van Gulik, and Henk Noorman. "Bioprocess scale-up/down as integrative enabling technology: from fluid mechanics to systems biology and beyond." Microbial Biotechnology 10, no. 5 (August 14, 2017): 1267–74. http://dx.doi.org/10.1111/1751-7915.12803.

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2

Villegas-Méndez, Miguel Ángel, Julio Montañez, Juan Carlos Contreras-Esquivel, Iván Salmerón, Apostolis Koutinas, and Lourdes Morales-Oyervides. "Coproduction of Microbial Oil and Carotenoids within the Circular Bioeconomy Concept: A Sequential Solid-State and Submerged Fermentation Approach." Fermentation 8, no. 6 (May 28, 2022): 258. http://dx.doi.org/10.3390/fermentation8060258.

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The main objective of integrative biorefinery platforms is to propose efficient green methodologies addressed to obtain high-value compounds with low emissions through biochemical conversions. This work first screened the capacity of various oleaginous yeast to cosynthesize high-value biomolecules such as lipids and carotenoids. Selected strains were evaluated for their ability to coproduce such biocompounds in the waste-based media of agro-food (brewer’s spent grain, pasta processing waste and bakery waste). Carbon and nitrogen source feedstock was obtained through enzymatic hydrolysis of the agro-food waste, where up to 80% of total sugar/starch conversion was obtained. Then, the profitability of the bioprocess for microbial oil (MO) and carotenoids production by Sporobolomyces roseus CFGU-S005 was estimated via simulation using SuperPro Designer®. Results showed the benefits of establishing optimum equipment scheduling by identifying bottlenecks to increase profitability. Sensitivity analysis demonstrated the impact of MO price and batch throughput on process economics. A profitable process was achieved with a MO batch throughput of 3.7 kg/batch (ROI 31%, payback time 3.13 years). The results revealed areas that require further improvement to achieve a sustainable and competitive process for the microbial production of carotenoids and lipids.

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3

Rodrigues, Carlos J. C., and Carla C. C. R. de Carvalho. "Marine Bioprospecting, Biocatalysis, and Process Development." Microorganisms 10, no. 10 (October 5, 2022): 1965. http://dx.doi.org/10.3390/microorganisms10101965.

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Oceans possess tremendous diversity in microbial life. The enzymatic machinery that marine bacteria present is the result of extensive evolution to assist cell survival under the harsh and continuously changing conditions found in the marine environment. Several bacterial cells and enzymes are already used at an industrial scale, but novel biocatalysts are still needed for sustainable industrial applications, with benefits for both public health and the environment. Metagenomic techniques have enabled the discovery of novel biocatalysts, biosynthetic pathways, and microbial identification without their cultivation. However, a key stage for application of novel biocatalysts is the need for rapid evaluation of the feasibility of the bioprocess. Cultivation of not-yet-cultured bacteria is challenging and requires new methodologies to enable growth of the bacteria present in collected environmental samples, but, once a bacterium is isolated, its enzyme activities are easily measured. High-throughput screening techniques have also been used successfully, and innovative in vitro screening platforms to rapidly identify relevant enzymatic activities continue to improve. Small-scale approaches and process integration could improve the study and development of new bioprocesses to produce commercially interesting products. In this work, the latest studies related to i. the growth of marine bacteria under laboratorial conditions, ii. screening techniques for bioprospecting, and iii. bioprocess development using microreactors and miniaturized systems are reviewed and discussed.

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4

Bayer, B., B. Sissolak, M. Duerkop, M. von Stosch, and G. Striedner. "The shortcomings of accurate rate estimations in cultivation processes and a solution for precise and robust process modeling." Bioprocess and Biosystems Engineering 43, no. 2 (September 20, 2019): 169–78. http://dx.doi.org/10.1007/s00449-019-02214-6.

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Abstract The accurate estimation of cell growth or the substrate consumption rate is crucial for the understanding of the current state of a bioprocess. Rates unveil the actual cell status, making them valuable for quality-by-design concepts. However, in bioprocesses, the real rates are commonly not accessible due to analytical errors. We simulated Escherichia coli fed-batch fermentations, sampled at four different intervals and added five levels of noise to mimic analytical inaccuracy. We computed stepwise integral estimations with and without using moving average estimations, and smoothing spline interpolations to compare the accuracy and precision of each method to calculate the rates. We demonstrate that stepwise integration results in low accuracy and precision, especially at higher sampling frequencies. Contrary, a simple smoothing spline function displayed both the highest accuracy and precision regardless of the chosen sampling interval. Based on this, we tested three different options for substrate uptake rate estimations.

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5

Aguilar, Francisco, Thomas Scheper, and Sascha Beutel. "Improved Production and In Situ Recovery of Sesquiterpene (+)-Zizaene from Metabolically-Engineered E. coli." Molecules 24, no. 18 (September 15, 2019): 3356. http://dx.doi.org/10.3390/molecules24183356.

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The sesquiterpene (+)-zizaene is the direct precursor of khusimol, the main fragrant compound of the vetiver essential oil from Chrysopogon zizanioides and used in nearly 20% of men’s fine perfumery. The biotechnological production of such fragrant sesquiterpenes is a promising alternative towards sustainability; nevertheless, product recovery from fermentation is one of the main constraints. In an effort to improve the (+)-zizaene recovery from a metabolically-engineered Escherichia coli, we developed an integrated bioprocess by coupling fermentation and (+)-zizaene recovery using adsorber extractants. Initially, (+)-zizaene volatilization was confirmed from cultivations with no extractants but application of liquid–liquid phase partitioning cultivation (LLPPC) improved (+)-zizaene recovery nearly 4-fold. Furthermore, solid–liquid phase partitioning cultivation (SLPPC) was evaluated by screening polymeric adsorbers, where Diaion HP20 reached the highest recovery. Bioprocess was scaled up to 2 L bioreactors and in situ recovery configurations integrated to fermentation were evaluated. External recovery configuration was performed with an expanded bed adsorption column and improved (+)-zizaene titers 2.5-fold higher than LLPPC. Moreover, internal recovery configuration (IRC) further enhanced the (+)-zizaene titers 2.2-fold, whereas adsorption velocity was determined as critical parameter for recovery efficiency. Consequently, IRC improved the (+)-zizaene titer 8.4-fold and productivity 3-fold from our last report, achieving a (+)-zizaene titer of 211.13 mg L−1 and productivity of 3.2 mg L−1 h−1. This study provides further knowledge for integration of terpene bioprocesses by in situ product recovery, which could be applied for many terpene studies towards the industrialization of fragrant molecules.

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6

Ignova, M., J. Glassey, G. A. Montague, A. C. Ward, and A. J. Morris. "Knowledge integration for improved bioprocess supervision." Annual Review in Automatic Programming 19 (January 1994): 269–73. http://dx.doi.org/10.1016/0066-4138(94)90077-9.

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7

Zerajic, Stanko, Dragan Cvetkovic, and Ilija Mladenovic. "Modeling and simulation of the bioprocess with recirculation." Chemical Industry 61, no. 5 (2007): 263–71. http://dx.doi.org/10.2298/hemind0704263z.

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The bioprocess models with recirculation present an integration of the model of continuous bioreaction system and the model of separation system. The reaction bioprocess is integrated with separation the biomass, formed product, no consumed substrate or inhibitory substance. In this paper the simulation model of recirculation bioprocess was developed, which may be applied for increasing the biomass productivity and product biosynthesis increasing the conversion of a substrate-to-product, mixing efficiency and secondary C02 separation. The goal of the work is optimal bioprocess configuration, which is determined by simulation optimization. The optimal hemostat state was used as referent. Step-by-step simulation method is necessary because the initial bioprocess state is changing with recirculation in each step. The simulation experiment confirms that at the recirculation ratio a. = 0.275 and the concentration factor C = 4 the maximum glucose conversion to ethanol and at a dilution rate ten times larger.

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8

Gaden, Elmer L. "Bioprocess Integration: Long-Range Problems and Prospects." Biotechnology Progress 2, no. 4 (December 1986): D2. http://dx.doi.org/10.1002/btpr.5420020402.

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9

Satish Kumar, R., B. Nageswara Rao, M. Prameela, S. Peniel Pauldoss, Amol L. Mangrulkar, Saleh H. Salmen, Sami Al Obaid, S. Sappireamaniyan, and Kibrom Menasbo Hadish. "Assessment of Bioprocess Development-Based Modeling and Simulation in a Sustainable Environment." International Journal of Photoenergy 2022 (May 5, 2022): 1–10. http://dx.doi.org/10.1155/2022/6428740.

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Modeling and simulation help us gain a better knowledge of chemical systems and develop obstacles and improvement opportunities. In the initial stages of systems integration, the time and money constraints prevent more precise estimates, basic simulation software that provides a reasonable approximation of energy and material usage and procedure exhaust is typically useful. Every next era of technicians will confront a new set of difficulties, including developing new biochemical reactions with high sensitivity and selectivity for pharmaceutical industries and manufacturing lesser chemicals from biomass resources. This job will need the use of operational process systems integration development tools. The existing toolsneed improvement so that they could be used to examine operations against sustainability principles as well as profitability. Eventually, characteristic models for substances that aren’t presently in collections will be necessary. In the field of integrated bioprocesses, there will undoubtedly be a plethora of new prospects for process systems engineering. The financial and environmental evaluations were based on a generic methodology for collecting first-estimate stock levels. The time it takes to do the evaluation may be cut in half, and a wider number of choices could be explored. A valuable commitment to sustainability bioprocess modeling and evaluation can be made by using a first-approximation numerical method as the basis for financial and environmental evaluations.

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10

Yin, Dong-Ya, Jiang Pan, Jie Zhu, You-Yan Liu, and Jian-He Xu. "A green-by-design bioprocess for l-carnosine production integrating enzymatic synthesis with membrane separation." Catalysis Science & Technology 9, no. 21 (2019): 5971–78. http://dx.doi.org/10.1039/c9cy01622h.

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11

Strube, J., C. Helling, and H. Fröhlich. "Integration of Membrane Unit Operations in Bioprocess Design." Chemie Ingenieur Technik 84, no. 8 (July 25, 2012): 1336. http://dx.doi.org/10.1002/cite.201250142.

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12

Ochieng, Richard, Alemayehu Gebremedhin, and Shiplu Sarker. "Integration of Waste to Bioenergy Conversion Systems: A Critical Review." Energies 15, no. 7 (April 6, 2022): 2697. http://dx.doi.org/10.3390/en15072697.

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Sustainable biofuel production is the most effective way to mitigate greenhouse gas emissions associated with fossil fuels while preserving food security and land use. In addition to producing bioenergy, waste biorefineries can be incorporated into the waste management system to solve the future challenges of waste disposal. Biomass waste, on the other hand, is regarded as a low-quality biorefinery feedstock with a wide range of compositions and seasonal variability. In light of these factors, biomass waste presents limitations on the conversion technologies available for value addition, and therefore more research is needed to enhance the profitability of waste biorefineries. Perhaps, to keep waste biorefineries economically and environmentally sustainable, bioprocesses need to be integrated to process a wide range of biomass resources and yield a diverse range of bioenergy products. To achieve optimal integration, the classification of biomass wastes to match the available bioprocesses is vital, as it minimizes unnecessary processes that may increase the production costs of the biorefinery. Based on biomass classification, this study discusses the suitability of the commonly used waste-to-energy conversion methods and the creation of integrated biorefineries. In this study, the integration of waste biorefineries is discussed through the integration of feedstocks, processes, platforms, and the symbiosis of wastes and byproducts. This review seeks to conceptualize a framework for identifying and integrating waste-to-energy technologies for the varioussets of biomass wastes.

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13

Schmid, Ingrid, and Joachim Aschoff. "A scalable software framework for data integration in bioprocess development." Engineering in Life Sciences 17, no. 11 (September 5, 2016): 1159–65. http://dx.doi.org/10.1002/elsc.201600008.

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14

Shimizu, Hiroshi. "Metabolic engineering — Integrating methodologies of molecular breeding and bioprocess systems engineering." Journal of Bioscience and Bioengineering 94, no. 6 (December 2002): 563–73. http://dx.doi.org/10.1016/s1389-1723(02)80196-7.

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15

SHIMIZU, HIROSHI. "Metabolic Engineering. Integrating Methodologies of Molecular Breeding and Bioprocess Systems Engineering." Journal of Bioscience and Bioengineering 94, no. 6 (2002): 563–73. http://dx.doi.org/10.1263/jbb.94.563.

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16

Göbel, Uta. "Editorial: Integration in bioprocess engineering - highlights ofEngineering in Life Sciencesin 2014." Engineering in Life Sciences 15, no. 1 (January 2015): 2–3. http://dx.doi.org/10.1002/elsc.201570014.

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17

Cabrol, Léa, and Luc Malhautier. "Integrating microbial ecology in bioprocess understanding: the case of gas biofiltration." Applied Microbiology and Biotechnology 90, no. 3 (March 22, 2011): 837–49. http://dx.doi.org/10.1007/s00253-011-3191-9.

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18

SZYPERSKI, THOMAS. "13C-NMR, MS and metabolic flux balancing in biotechnology research." Quarterly Reviews of Biophysics 31, no. 1 (February 1998): 41–106. http://dx.doi.org/10.1017/s0033583598003412.

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The European Federation of Biotechnology defines biotechnology as ‘the integration of natural sciences and engineering sciences in order to achieve the application of organisms, cells, parts thereof and molecular analogues for products and services’. Biotechnology thus focuses on the industrial exploitation of biological systems and is based on their unique expertise in specific molecular recognition and catalysis. The enormous potential for drug synthesis, design of biomedical diagnostics, large-scale production of biochemicals including fuels, food production, degradation of resistant wastes and extraction of raw materials will very likely make biotechnology, along with electronics and material sciences, one of the key technologies of the 21st century. From the chemical engineer's point of view, the living system participating in a biotechnological process is the central unit that catalyses chemical reactions. It exhibits a complex dependence on the bioprocess parameters, and the engineer focuses on these parameters to achieve optimal control (Hamer, 1985; Bailey & Ollis, 1986). For the natural scientist, the living system itself is in the centre of interest, so that attempts to optimize a bioprocess aim at its appropriate redesign by genetic manipulations. The increase in penicillin production by strain improvement based on random mutagenesis, which was pursued from 1940 to the mid 1970s, represents an early contribution of life scientists to improve a bioprocess that is of utmost medical importance (Hardy & Oliver, 1985).

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19

Fresewinkel, Mark, Rosa Rosello, Christian Wilhelm, Olaf Kruse, Ben Hankamer, and Clemens Posten. "Integration in microalgal bioprocess development: Design of efficient, sustainable, and economic processes." Engineering in Life Sciences 14, no. 6 (August 14, 2014): 560–73. http://dx.doi.org/10.1002/elsc.201300153.

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20

Portela, Richelle, Dumas, and von Stosch. "Time Integrated Flux Analysis: Exploiting the Concentration Measurements Directly for Cost-Effective Metabolic Network Flux Analysis." Microorganisms 7, no. 12 (November 27, 2019): 620. http://dx.doi.org/10.3390/microorganisms7120620.

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Background: Flux analyses, such as Metabolic Flux Analysis (MFA), Flux Balance Analysis (FBA), Flux Variability Analysis (FVA) or similar methods, can provide insights into the cellular metabolism, especially in combination with experimental data. The most common integration of extracellular concentration data requires the estimation of the specific fluxes (/rates) from the measured concentrations. This is a time-consuming, mathematically ill-conditioned inverse problem, raising high requirements for the quality and quantity of data. Method: In this contribution, a time integrated flux analysis approach is proposed which avoids the error-prone estimation of specific flux values. The approach is adopted for a Metabolic time integrated Flux Analysis and (sparse) time integrated Flux Balance/Variability Analysis. The proposed approach is applied to three case studies: (1) a simulated bioprocess case studying the impact of the number of samples (experimental points) and measurements’ noise on the performance; (2) a simulation case to understand the impact of network redundancies and reaction irreversibility; and (3) an experimental bioprocess case study, showing its relevance for practical applications. Results: It is observed that this method can successfully estimate the time integrated flux values, even with relatively low numbers of samples and significant noise levels. In addition, the method allows the integration of additional constraints (e.g., bounds on the estimated concentrations) and since it eliminates the need for estimating fluxes from measured concentrations, it significantly reduces the workload while providing about the same level of insight into the metabolism as classic flux analysis methods.

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21

Przybył, Joanna. "VIEWS and NEWS Integrative high-throughput sequencing in personalized oncology • 10th Carbohydrate Bioengineering Meeting • 12th International Symposium on the Genetics of Industrial Microorganisms • Novel consolidated bioprocess for biofuel production in E. coli • Protein Engineering: New Approaches and Applications • Tomato genome published • Use of Google algorithm to identify pancreatic cancer biomarkers." BioTechnologia 3 (2012): 273–75. http://dx.doi.org/10.5114/bta.2012.46581.

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22

Gomes, James, Viki R. Chopda, and Anurag S. Rathore. "Integrating systems analysis and control for implementing process analytical technology in bioprocess development." Journal of Chemical Technology & Biotechnology 90, no. 4 (December 4, 2014): 583–89. http://dx.doi.org/10.1002/jctb.4591.

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23

Tapia, Estela, Andres Donoso-Bravo, Léa Cabrol, Madalena Alves, Alcina Pereira, Alain Rapaport, and Gonzalo Ruiz-Filippi. "A methodology for a quantitative interpretation of DGGE with the help of mathematical modelling: application in biohydrogen production." Water Science and Technology 69, no. 3 (October 28, 2013): 511–17. http://dx.doi.org/10.2166/wst.2013.719.

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Molecular biology techniques provide valuable insights in the investigation of microbial dynamics and evolution. Denaturing gradient gel electrophoresis (DGGE) analysis is one of the most popular methods which have been used in bioprocess assessment. Most of the anaerobic digestion models consider several microbial populations as state variables. However, the difficulty of measuring individual species concentrations may cause inaccurate model predictions. The integration of microbial data and ecosystem modelling is currently a challenging issue for improved system control. A novel procedure that combines common experimental measurements, DGGE, and image analysis is presented in this study in order to provide a preliminary estimation of the actual concentration of the dominant bacterial ribotypes in a bioreactor, for further use as a variable in mathematical modelling of the bioprocess. This approach was applied during the start-up of a continuous anaerobic bioreactor for hydrogen production. The experimental concentration data were used for determining the kinetic parameters of each species, by using a multi-species chemostat-model. The model was able to reproduce the global trend of substrate and biomass concentrations during the reactor start-up, and predicted in an acceptable way the evolution of each ribotype concentration, depicting properly specific ribotype selection and extinction.

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24

Rašković, P., A. Anastasovski, Lj Markovska, and V. Meško. "Process integration in bioprocess indystry: waste heat recovery in yeast and ethyl alcohol plant." Energy 35, no. 2 (February 2010): 704–17. http://dx.doi.org/10.1016/j.energy.2009.11.020.

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25

Simpkins, Scott W., Justin Nelson, Raamesh Deshpande, Sheena C. Li, Jeff S. Piotrowski, Erin H. Wilson, Abraham A. Gebre, et al. "Predicting bioprocess targets of chemical compounds through integration of chemical-genetic and genetic interactions." PLOS Computational Biology 14, no. 10 (October 30, 2018): e1006532. http://dx.doi.org/10.1371/journal.pcbi.1006532.

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26

Tack, A., J. Schiffler, and S. Zelle. "Integration of Bioprocess Control Software with Process Analytical Technology and Software for Multivariate Analysis." Chemie Ingenieur Technik 90, no. 9 (August 24, 2018): 1240–41. http://dx.doi.org/10.1002/cite.201855240.

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27

D‘Souza, Roy N., Ana M. Azevedo, M. Raquel Aires-Barros, Nika Lendero Krajnc, Petra Kramberger, Maria Laura Carbajal, Mariano Grasselli, Roland Meyer, and Marcelo Fernández-Lahore. "Emerging technologies for the integration and intensification of downstream bioprocesses." Pharmaceutical Bioprocessing 1, no. 5 (December 2013): 423–40. http://dx.doi.org/10.4155/pbp.13.55.

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28

Pajčin, Ivana, Teodora Knežić, Ivana Savic Azoulay, Vanja Vlajkov, Mila Djisalov, Ljiljana Janjušević, Jovana Grahovac, and Ivana Gadjanski. "Bioengineering Outlook on Cultivated Meat Production." Micromachines 13, no. 3 (February 28, 2022): 402. http://dx.doi.org/10.3390/mi13030402.

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Cultured meat (also referred to as cultivated meat or cell-based meat)—CM—is fabricated through the process of cellular agriculture (CA), which entails application of bioengineering, i.e., tissue engineering (TE) principles to the production of food. The main TE principles include usage of cells, grown in a controlled environment provided by bioreactors and cultivation media supplemented with growth factors and other needed nutrients and signaling molecules, and seeded onto the immobilization elements—microcarriers and scaffolds that provide the adhesion surfaces necessary for anchor-dependent cells and offer 3D organization for multiple cell types. Theoretically, many solutions from regenerative medicine and biomedical engineering can be applied in CM-TE, i.e., CA. However, in practice, there are a number of specificities regarding fabrication of a CM product that needs to fulfill not only the majority of functional criteria of muscle and fat TE, but also has to possess the sensory and nutritional qualities of a traditional food component, i.e., the meat it aims to replace. This is the reason that bioengineering aimed at CM production needs to be regarded as a specific scientific discipline of a multidisciplinary nature, integrating principles from biomedical engineering as well as from food manufacturing, design and development, i.e., food engineering. An important requirement is also the need to use as little as possible of animal-derived components in the whole CM bioprocess. In this review, we aim to present the current knowledge on different bioengineering aspects, pertinent to different current scientific disciplines but all relevant for CM engineering, relevant for muscle TE, including different cell sources, bioreactor types, media requirements, bioprocess monitoring and kinetics and their modifications for use in CA, all in view of their potential for efficient CM bioprocess scale-up. We believe such a review will offer a good overview of different bioengineering strategies for CM production and will be useful to a range of interested stakeholders, from students just entering the CA field to experienced researchers looking for the latest innovations in the field.

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29

Salas‐Villalobos, Ulises A., Rígel V. Gómez‐Acata, Josefina Castillo‐Reyna, and Oscar Aguilar. "In situ product recovery as a strategy for bioprocess integration and depletion of inhibitory products." Journal of Chemical Technology & Biotechnology 96, no. 10 (May 20, 2021): 2735–43. http://dx.doi.org/10.1002/jctb.6797.

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30

Tafur Rangel, Albert E., Abel García Oviedo, Freddy Cabrera Mojica, Jorge M. Gómez, and Andrés Fernando Gónzalez Barrios. "Development of an integrating systems metabolic engineering and bioprocess modeling approach for rational strain improvement." Biochemical Engineering Journal 178 (January 2022): 108268. http://dx.doi.org/10.1016/j.bej.2021.108268.

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31

Isimite, Joseph, Frank Baganz, and Volker Hass. "A systems engineering framework for the design of bioprocess operator training simulators." E3S Web of Conferences 78 (2019): 03001. http://dx.doi.org/10.1051/e3sconf/20197803001.

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Operator training simulators (OTS) are widely used in several industries including chemical processing, oil and gas, medicine, aircraft and nuclear facilities. However, developing a biorefinery OTS is a complex engineering design activity that requires a structured technique. This paper presents a structured methodology that applies design frameworks from other disciplines and a user-centred approach for biorefinery OTS design. These include the definition of end user requirements (operator training needs), and the analysis of these requirements using Quality Function Deployment (QFD). Furthermore, an algorithm for bioprocess optimisation and automatic adjustment of operating parameters is developed for integration into the OTS. This algorithm is based on the Nelder-Mead simplex method for multi-dimensional function minimisation. Identified user requirements were categorized into primary, secondary and tertiary training needs, with increasing levels of detail from primary to tertiary needs. The relationships between identified operator training needs and OTS technical and functional specifications were investigated, and a priority rating assigned to the most important OTS specifications. Identified OTS specifications were evaluated for robustness to ensure that important features were not omitted from the final design.

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32

Silva, Marta M., Ana F. Rodrigues, Cláudia Correia, Marcos F. Q. Sousa, Catarina Brito, Ana S. Coroadinha, Margarida Serra, and Paula M. Alves. "Robust Expansion of Human Pluripotent Stem Cells: Integration of Bioprocess Design With Transcriptomic and Metabolomic Characterization." STEM CELLS Translational Medicine 4, no. 7 (May 15, 2015): 731–42. http://dx.doi.org/10.5966/sctm.2014-0270.

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33

Floris, Patrick, Noemí Dorival-García, Graham Lewis, Graham Josland, Daniel Merriman, and Jonathan Bones. "Real-time characterization of mammalian cell culture bioprocesses by magnetic sector MS." Analytical Methods 12, no. 46 (2020): 5601–12. http://dx.doi.org/10.1039/d0ay01563f.

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Mammalian cell culture processes were characterized upon the analysis of the exhaust-gas composition achieved through the on-line integration of a magnetic sector MS analyser with benchtop bioreactors.

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34

Yao, Shiyun, Cheng Zhang, and Heyang Yuan. "Emerging investigator series: modeling of wastewater treatment bioprocesses: current development and future opportunities." Environmental Science: Water Research & Technology 8, no. 2 (2022): 208–25. http://dx.doi.org/10.1039/d1ew00739d.

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35

Cunha, Bárbara, Tiago Aguiar, Sofia B. Carvalho, Marta M. Silva, Ricardo A. Gomes, Manuel J. T. Carrondo, Patrícia Gomes-Alves, Cristina Peixoto, Margarida Serra, and Paula M. Alves. "Bioprocess integration for human mesenchymal stem cells: From up to downstream processing scale-up to cell proteome characterization." Journal of Biotechnology 248 (April 2017): 87–98. http://dx.doi.org/10.1016/j.jbiotec.2017.01.014.

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Gallipoli, Agata, Andrea Gianico, Simona Crognale, Simona Rossetti, Leone Mazzeo, Vincenzo Piemonte, Maurizio Masi, and Camilla Maria Braguglia. "3-ROUTES PLATFORM FOR RECOVERY OF HIGH VALUE PRODUCTS, ENERGY AND BIO-FERTILIZER FROM URBAN BIOWASTE: THE REVENUE PROJECT." Detritus, no. 15 (June 30, 2021): 24–30. http://dx.doi.org/10.31025/2611-4135/2021.15092.

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This innovative Biorefinery platform is based on the integration of a mild thermal pre-treatment and a solid/liquid separation unit to parallel-integrated bioprocesses specifically selected on food waste distinctive chemical composition: a liquid fraction, rich in readily fermentable sugars, to be transformed into valuable biobased products, and a solid organic residue to enhance biomethane production generating a fully hygienized digestate to be recycled. The preliminary results in terms of VFAs yields and composition from the acidogenic stage, and the methane conversion rate from the anaerobic digestion of the solid residue, are here presented

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37

Antov, Mirjana. "Bioseparations in aqueous two-phase systems." Acta Periodica Technologica, no. 36 (2005): 145–54. http://dx.doi.org/10.2298/apt0536145a.

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Bioseparations conducted in aqueous two-phase systems offer a great number of advantages over the conventional separation techniques. Among them the most relevant are rapid mass transfer due to low interfacial tension, rapid and selective separation, easiness of operation mode, reliability in scale-up biocompatibility and environment-friendly features, and possibility of process integration when applied in biomolecule production. Upon overcoming the major problem - mostly empirical establishment of operating conditions bioseparations in aqueous two-phase systems will become a necessary step in both existing and newly developed bioprocesses for the primary recovery of products.

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Ugalde-Salas, Pablo, Héctor Ramírez C., Jérôme Harmand, and Elie Desmond-Le Quéméner. "Microbial Interactions as Drivers of a Nitrification Process in a Chemostat." Bioengineering 8, no. 3 (February 25, 2021): 31. http://dx.doi.org/10.3390/bioengineering8030031.

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This article deals with the inclusion of microbial ecology measurements such as abundances of operational taxonomic units in bioprocess modelling. The first part presents the mathematical analysis of a model that may be framed within the class of Lotka–Volterra models fitted to experimental data in a chemostat setting where a nitrification process was operated for over 500 days. The limitations and the insights of such an approach are discussed. In the second part, the use of an optimal tracking technique (developed within the framework of control theory) for the integration of data from genetic sequencing in chemostat models is presented. The optimal tracking revisits the data used in the aforementioned chemostat setting. The resulting model is an explanatory model, not a predictive one, it is able to reconstruct the different forms of nitrogen in the reactor by using the abundances of the operational taxonomic units, providing some insights into the growth rate of microbes in a complex community.

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Grist, Samantha M., Kevin L. Bennewith, and Karen C. Cheung. "Oxygen Measurement in Microdevices." Annual Review of Analytical Chemistry 15, no. 1 (June 13, 2022): 221–46. http://dx.doi.org/10.1146/annurev-anchem-061020-111458.

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Oxygen plays a fundamental role in respiration and metabolism, and quantifying oxygen levels is essential in many environmental, industrial, and research settings. Microdevices facilitate the study of dynamic, oxygen-dependent effects in real time. This review is organized around the key needs for oxygen measurement in microdevices, including integrability into microfabricated systems; sensor dynamic range and sensitivity; spatially resolved measurements to map oxygen over two- or three-dimensional regions of interest; and compatibility with multimodal and multianalyte measurements. After a brief overview of biological readouts of oxygen, followed by oxygen sensor types that have been implemented in microscale devices and sensing mechanisms, this review presents select recent applications in organs-on-chip in vitro models and new sensor capabilities enabling oxygen microscopy, bioprocess manufacturing, and pharmaceutical industries. With the advancement of multiplexed, interconnected sensors and instruments and integration with industry workflows, intelligent microdevice-sensor systems including oxygen sensors will have further impact in environmental science, manufacturing, and medicine.

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Wang, Guan, Wenjun Tang, Jianye Xia, Ju Chu, Henk Noorman, and Walter M. van Gulik. "Integration of microbial kinetics and fluid dynamics toward model-driven scale-up of industrial bioprocesses." Engineering in Life Sciences 15, no. 1 (December 11, 2014): 20–29. http://dx.doi.org/10.1002/elsc.201400172.

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41

Christini, David J., Jeff Walden, and Jay M. Edelberg. "Direct biologically based biosensing of dynamic physiological function." American Journal of Physiology-Heart and Circulatory Physiology 280, no. 5 (May 1, 2001): H2006—H2010. http://dx.doi.org/10.1152/ajpheart.2001.280.5.h2006.

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Dynamic regulation of biological systems requires real-time assessment of relevant physiological needs. Biosensors, which transduce biological actions or reactions into signals amenable to processing, are well suited for such monitoring. Typically, in vivo biosensors approximate physiological function via the measurement of surrogate signals. The alternative approach presented here would be to use biologically based biosensors for the direct measurement of physiological activity via functional integration of relevant governing inputs. We show that an implanted excitable-tissue biosensor (excitable cardiac tissue) can be used as a real-time, integrated bioprocessor to analyze the complex inputs regulating a dynamic physiological variable (heart rate). This approach offers the potential for long-term biologically tuned quantification of endogenous physiological function.

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Barba, Francisco J. "An Integrated Approach for the Valorization of Cheese Whey." Foods 10, no. 3 (March 9, 2021): 564. http://dx.doi.org/10.3390/foods10030564.

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Taking into account the large amount of whey that is produced during the cheese production process and the constant demand by society for more sustainable processes, in accordance with Sustainable Development Goals (SDGs) and the circular economy concept, it is necessary to adapt two-unit operations into a single process, allowing us to not only valorize a part of the whey but the whole process, which is known as bioprocess integration. In this sense, the adaptation of different processes, for example, physicochemical (micro, ultra and nanofiltration) and fermentation, that are commonly used to obtain proteins, lactose and other compounds with different activities (antioxidant, antifungal, etc.) could be integrated to achieve a complete recovery of the cheese whey. Likewise, keeping in mind that one of the main drawbacks of cheese whey is the great microbial load, some innovative processing technologies, such as high hydrostatic pressures, electrotechnologies and ultrasound, can allow both the development of new foods from whey as well as the improvement of the nutritional and organoleptic properties of the final products prepared with cheese, and thus reducing the microbial load and obtaining a safe product could be incorporated in the cheese whey valorization process.

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Liu, Xinlu, Rou Cao, Ali Nawaz, Ikram ul Haq, Xin Zhou, and Yong Xu. "Smart removal of monosaccharide contaminants in xylo-oligosaccharide slurry using sandwich-integration bioprocess of whole-cell catalysis combined with electrodialysis separation." Renewable Energy 168 (May 2021): 1149–56. http://dx.doi.org/10.1016/j.renene.2021.01.007.

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44

Lin, Kevin, Maximilian Billmann, Henry Ward, Ya-Chu Chang, Anja-Katrin Bielinsky, and Chad L. Myers. "12621 Targeted Chemical-Genetic Screen Platform for Identifying Drug Modes-of-Action." Journal of Clinical and Translational Science 5, s1 (March 2021): 101–2. http://dx.doi.org/10.1017/cts.2021.661.

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ABSTRACT IMPACT: The key to advancing precision medicine is to deepen our understanding of drug modes-of-action (MOA). This project aims to develop a novel method for predicting MOA of potential drug compounds, providing an experimental and computational platform for more efficient drug discovery. OBJECTIVES/GOALS: To develop (1) a targeted CRISPR-Cas9 chemical-genetic screen approach, and (2) a computational method to predict drug mode-of-action from chemical-genetic interaction profiles. METHODS/STUDY POPULATION: Screening drugs against a gene deletion library can identify knockouts that modulate drug sensitivity. These chemical-genetic interaction (CGI) screens can be performed in human cell lines using a pooled lentiviral CRISPR-Cas9 approach to assess drug sensitivity/resistance of single-gene knockouts across the human genome. A targeted, rather than genome-wide, library can enable scaling these screens across many drugs.CGI profiles can be derived from phenotypic screen readouts. These profiles are analogous to genetic interaction (GI) profiles, which represent sensitivity/resistance of gene knockouts to a second gene knockout rather than a drug. To computationally predict a drug’s genetic target, we leverage the property that a drug’s CGI profile will be similar to its target’s GI profile. RESULTS/ANTICIPATED RESULTS: Five proof-of-principle screens will be conducted with compounds that have existing genome-wide profiles and well-characterized MOA. I will generate CGI profiles for these five compounds and identify genes that are drug-sensitizers or drug-suppressors. I will then evaluate whether targeted library screens can recapitulate the CGIs found in genome-wide screens. Finally, I will develop a computational tool to integrate these CGI profiles with GI profiles (derived from another project) to predict gene-level and bioprocess-level drug targets. These predictions (from both targeted and genome-wide profiles) will be benchmarked against a drug-target and drug-bioprocess standard. DISCUSSION/SIGNIFICANCE OF FINDINGS: This work will develop a scalable, targeted chemical-genetic screen approach to discovering how putative therapeutics work. The targeted screen workflow provides a method for higher-throughput drug screening. The computational pipeline provides a powerful tool for exploring the MOA of uncharacterized drugs or repurposing FDA-approved drugs.

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Sreeharsha, Rachapudi Venkata, and S. Venkata Mohan. "Symbiotic integration of bioprocesses to design a self-sustainable life supporting ecosystem in a circular economy framework." Bioresource Technology 326 (April 2021): 124712. http://dx.doi.org/10.1016/j.biortech.2021.124712.

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Balasubramanian, Balamuralikrishnan, Wenchao Liu, Karthika Pushparaj, and Sungkwon Park. "The Epic of In Vitro Meat Production—A Fiction into Reality." Foods 10, no. 6 (June 16, 2021): 1395. http://dx.doi.org/10.3390/foods10061395.

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Due to a proportionally increasing population and food demands, the food industry has come up with wide innovations, opportunities, and possibilities to manufacture meat under in vitro conditions. The amalgamation of cell culture and tissue engineering has been the base idea for the development of the synthetic meat, and this has been proposed to be a pivotal study for a futuristic muscle development program in the medical field. With improved microbial and chemical advancements, in vitro meat matched the conventional meat and is proposed to be eco-friendly, healthy, nutrient rich, and ethical. Despite the success, there are several challenges associated with the utilization of materials in synthetic meat manufacture, which demands regulatory and safety assessment systems to manage the risks associated with the production of cultured meat. The role of 3D bioprinting meat analogues enables a better nutritional profile and sensorial values. The integration of nanosensors in the bioprocess of culture meat eased the quality assessment throughout the food supply chain and management. Multidisciplinary approaches such as mathematical modelling, computer fluid dynamics, and biophotonics coupled with tissue engineering will be promising aspects to envisage the future prospective of this technology and make it available to the public at economically feasible rates.

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Samaras, Jasmin J., Martina Micheletti, and Weibing Ding. "Transformation of Biopharmaceutical Manufacturing Through Single-Use Technologies: Current State, Remaining Challenges, and Future Development." Annual Review of Chemical and Biomolecular Engineering 13, no. 1 (June 10, 2022): 73–97. http://dx.doi.org/10.1146/annurev-chembioeng-092220-030223.

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Single-use technologies have transformed conventional biopharmaceutical manufacturing, and their adoption is increasing rapidly for emerging applications like antibody–drug conjugates and cell and gene therapy products. These disruptive technologies have also had a significant impact during the coronavirus disease 2019 pandemic, helping to advance process development to enable the manufacturing of new monoclonal antibody therapies and vaccines. Single-use systems provide closed plug-and-play solutions and enable process intensification and continuous processing. Several challenges remain, providing opportunities to advance single-use sensors and their integration with single-use systems, to develop novel plastic materials, and to standardize design for interchangeability. Because the industry is changing rapidly, a holistic analysis of the current single-use technologies is required, with a summary of the latest advancements in materials science and the implementation of these technologies in end-to-end bioprocesses.

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Smart, Mariette, Robert J. Huddy, Catherine J. Edward, Charl Fourie, Trust Shumba, Jonathan Iron, and Susan T. L. Harrison. "Linking Microbial Community Dynamics in BIOX^® Leaching Tanks to Process Conditions: Integrating Lab and Commercial Experience." Solid State Phenomena 262 (August 2017): 38–42. http://dx.doi.org/10.4028/www.scientific.net/ssp.262.38.

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In the commercial BIOX® process, an acidophilic mixed bacterial and archaeal community dominated by iron and sulphur oxidising microorganisms is used to facilitate the recovery of precious metals from refractory gold-bearing sulphidic mineral concentrates. Characterisation of the microbial communities associated with commercial BIOX® reactors from four continents revealed a significant shift in the microbial community structure compared to that of the seed culture, maintained at SGS (South Africa). This has motivated more detailed study of the microbial community dynamics in the process. Microbial speciation of a subset of the BIOX® reactors at Fairview mines (Barberton, South Africa) and two laboratory maintained reactors housed at Centre for Bioprocess Engineering Research, University of Cape Town, has been performed tri-annually for three years by quantitative real-time polymerase chain reaction. The laboratory BIOX® culture maintained on Fairview concentrate was dominated by the desired iron oxidiser, Leptospirillum ferriphilum, and sulphur oxidiser, Acidithiobacillus caldus, when operated under standard BIOX® conditions. Shifts in the microbial community as a result of altered operating conditions were transient and did not result in a loss of the microbial diversity of the BIOX® culture. The community structure of the Fairview mines BIOX® reactor tanks showed archaeal dominance of these communities by organisms such as the iron oxidiser Ferroplasma acidiphilum and a Thermoplasma sp. for the period monitored. Shifts in the microbial community were observed across the monitoring period and mapped to changes in performance of the commercial process plant. Understanding the effect of changes in the plant operating conditions on the BIOX® community structure may assist in providing conditions that support the desired microbial consortium for optimal biooxidation to maximize gold recovery.

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Placzek, Mark R., I.-Ming Chung, Hugo M. Macedo, Siti Ismail, Teresa Mortera Blanco, Mayasari Lim, Jae Min Cha, et al. "Stem cell bioprocessing: fundamentals and principles." Journal of The Royal Society Interface 6, no. 32 (November 25, 2008): 209–32. http://dx.doi.org/10.1098/rsif.2008.0442.

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In recent years, the potential of stem cell research for tissue engineering-based therapies and regenerative medicine clinical applications has become well established. In 2006, Chung pioneered the first entire organ transplant using adult stem cells and a scaffold for clinical evaluation. With this a new milestone was achieved, with seven patients with myelomeningocele receiving stem cell-derived bladder transplants resulting in substantial improvements in their quality of life. While a bladder is a relatively simple organ, the breakthrough highlights the incredible benefits that can be gained from the cross-disciplinary nature of tissue engineering and regenerative medicine (TERM) that encompasses stem cell research and stem cell bioprocessing. Unquestionably, the development of bioprocess technologies for the transfer of the current laboratory-based practice of stem cell tissue culture to the clinic as therapeutics necessitates the application of engineering principles and practices to achieve control, reproducibility, automation, validation and safety of the process and the product. The successful translation will require contributions from fundamental research (from developmental biology to the ‘omics’ technologies and advances in immunology) and from existing industrial practice (biologics), especially on automation, quality assurance and regulation. The timely development, integration and execution of various components will be critical—failures of the past (such as in the commercialization of skin equivalents) on marketing, pricing, production and advertising should not be repeated. This review aims to address the principles required for successful stem cell bioprocessing so that they can be applied deftly to clinical applications.

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Aucamp, Jean P., Richard Davies, Damien Hallet, Amanda Weiss, and Nigel J. Titchener-Hooker. "Integration of host strain bioengineering and bioprocess development using ultra-scale down studies to select the optimum combination: An antibody fragment primary recovery case study." Biotechnology and Bioengineering 111, no. 10 (June 4, 2014): 1971–81. http://dx.doi.org/10.1002/bit.25259.

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