scholarly journals Considerations when Measuring Biocatalyst Performance

Molecules ◽  
2019 ◽  
Vol 24 (19) ◽  
pp. 3573 ◽  
Author(s):  
Mafalda Dias Gomes ◽  
John M. Woodley

As biocatalysis matures, it becomes increasingly important to establish methods with which to measure biocatalyst performance. Such measurements are important to assess immobilization strategies, different operating modes, and reactor configurations, aside from comparing protein engineered variants and benchmarking against economic targets. While conventional measurement techniques focus on a single performance metric (such as the total turnover number), here, it is argued that three metrics (achievable product concentration, productivity, and enzyme stability) are required for an accurate assessment of scalability.

2009 ◽  
Vol 45 (4) ◽  
pp. 635-642
Author(s):  
Sibel Uludag-Demirer ◽  
Jorge Duran ◽  
Robert D. Tanner

Substrate and product concentration data obtained by simulating enzyme-substrate reaction rate equations were used to test two proposed kinetic rate constant estimation techniques in this study. In the first technique, the turnover number, k3, was calculated using early transient time domain data, which are difficult to obtain experimentally. The technique used an iterative approach to calculate k3 with a pair of data and the value of k3 could be retrieved with 35% error. The second technique calculated k3 using stationary domain data and the value of k3 could be retrieved with less than 5% error. This second technique also offered internal consistency in the calculation of k3 by calculating k3 both from the intercept and the slope of the linear plot derived in this study. A series of sensitivity analyses was conducted to understand the robustness of the second technique in estimating k3 from simulated data to the changes in the reaction rate constants (k1, k2, and k3) and the initial concentration of enzyme used for simulation. It was found that the second technique generally worked well in the estimation of k3 except for the simulated data for fast substrate conversions such as in the large k3 and [E]0 cases . This latter method, thus, shows promise for the use of late time experimental substrate/product concentration data to obtain k3. Exclusively using late time data avoids the need for difficult and expensive rapid early time measurement techniques for estimating k3. Once a reasonable estimate for k3 is obtained, the initial enzyme value can easily be determined from the maximum velocity constant established from fitting the Michaelis-Menten or Briggs-Haldane equations to substrate and product stationary state domain (late time) data. While the first technique can estimate k3 with only one point in the transient domain, it is suggested that the second method generally be favored since it only requires late-time stationary domain data and appears to be more accurate.


2020 ◽  
Vol 86 (16) ◽  
Author(s):  
Mario Viñambres ◽  
Marta Espada ◽  
Angel T. Martínez ◽  
Ana Serrano

ABSTRACT The enzymatic production of 2,5-furandicarboxylic acid (FDCA) from 5-hydroxymethylfurfural (HMF) has gained interest in recent years, as FDCA is a renewable precursor of poly(ethylene-2,5-furandicarboxylate) (PEF). 5-Hydroxymethylfurfural oxidases (HMFOs) form a flavoenzyme family with genes annotated in a dozen bacterial species but only one enzyme purified and characterized to date (after heterologous expression of a Methylovorus sp. HMFO gene). This oxidase acts on both furfuryl alcohols and aldehydes and, therefore, is able to catalyze the conversion of HMF into FDCA through 2,5-diformylfuran (DFF) and 2,5-formylfurancarboxylic acid (FFCA), with only the need of oxygen as a cosubstrate. To enlarge the repertoire of HMFO enzymes available, genetic databases were screened for putative HMFO genes, followed by heterologous expression in Escherichia coli. After unsuccessful trials with other bacterial HMFO genes, HMFOs from two Pseudomonas species were produced as active soluble enzymes, purified, and characterized. The Methylovorus sp. enzyme was also produced and purified in parallel for comparison. Enzyme stability against temperature, pH, and hydrogen peroxide, three key aspects for application, were evaluated (together with optimal conditions for activity), revealing differences between the three HMFOs. Also, the kinetic parameters for HMF, DFF, and FFCA oxidation were determined, the new HMFOs having higher efficiencies for the oxidation of FFCA, which constitutes the bottleneck in the enzymatic route for FDCA production. These results were used to set up the best conditions for FDCA production by each enzyme, attaining a compromise between optimal activity and half-life under different conditions of operation. IMPORTANCE HMFO is the only enzyme described to date that can catalyze by itself the three consecutive oxidation steps to produce FDCA from HMF. Unfortunately, only one HMFO enzyme is currently available for biotechnological application. This availability is enlarged here by the identification, heterologous production, purification, and characterization of two new HMFOs, one from Pseudomonas nitroreducens and one from an unidentified Pseudomonas species. Compared to the previously known Methylovorus HMFO, the new enzyme from P. nitroreducens exhibits better performance for FDCA production in wider pH and temperature ranges, with higher tolerance for the hydrogen peroxide formed, longer half-life during oxidation, and higher yield and total turnover numbers in long-term conversions under optimized conditions. All these features are relevant properties for the industrial production of FDCA. In summary, gene screening and heterologous expression can facilitate the selection and improvement of HMFO enzymes as biocatalysts for the enzymatic synthesis of renewable building blocks in the production of bioplastics.


Catalysts ◽  
2020 ◽  
Vol 10 (4) ◽  
pp. 434 ◽  
Author(s):  
Alessandra Pucci ◽  
Gianluigi Albano ◽  
Matteo Pollastrini ◽  
Antonio Lucci ◽  
Marialuigia Colalillo ◽  
...  

The lack of supported versions of the tris[(1-benzyl-1H-1,2,3-triazol-4-yl)methyl]amine (TBTA) ligand, suitable for flow-chemistry applications at scale, prompted us to develop a new route for the immobilization of such tris-triazole chelating units on highly cross-linked polystyrene resins. With this aim, the preparation of the known TBTA-type monomer 3 was optimized to develop a high-yield synthetic sequence, devoid of chromatographic purifications at any stage. Then, bead-type (P7) and monolithic (M7) functional resins were obtained by the easy and scalable suspension- or mold-copolymerization of 3 with divinylbenzene. Both types of materials were found to possess a highly porous morphology and specific surface area in the dry state and could be charged with substantial amounts of Cu(I) or Cu(II) salts. After treatment of the latter with a proper reducing agent, the corresponding supported Cu(I) complexes were tested in the copper-catalyzed alkyne-azide cycloaddition reaction (CuAAC). The immobilized catalysts proved active at room temperature and, in batch and with catalyst loadings as low as 0.6 mol%, afforded quantitative conversions within 20 h. Independent of the alkyne structure, extended use of the supported catalyst in flow was also possible. In the reaction of benzylazide and propargyl alcohol, this allowed a total turnover number larger than 400 to be reached.


2019 ◽  
Vol 10 (2) ◽  
pp. 215-224 ◽  
Author(s):  
Andrey V. Medvedev ◽  
Alexander P. Potekhin

Abstract. The article focuses on the history of ionospheric research using the incoherent scatter method at the Institute of Solar-Terrestrial Physics and development of the only incoherent scatter radar in Russia, which is located near Irkutsk. It describes the radar features and the current situation of research at the Irkutsk Incoherent Scatter Radar (IISR). Operating modes and types of measurements of the radar are specified. There is a brief description of the original measurement techniques that were developed considering the IISR features such as the frequency principle of scanning and receiving of one linear polarization of a scattered signal. The main feature of the IISR is the possibility of obtaining absolute values of the ionospheric plasma electron density. The automatic method for constructing the electron density vertical profile is based on registration of vertical profiles of a rotation phase of the polarization plane of a scattered signal. The method does not require calibration with additional facilities.


2020 ◽  
Author(s):  
Shiny Joseph Srinivasan ◽  
Sarah Cleary ◽  
Caroline Paul ◽  
Miguel A. Ramirez ◽  
Kylie Vincent

<p>Robust [NiFe] hydrogenase 1 (Hyd1) from <i>Escherichia coli</i> is shown to have non-native, H<sub>2</sub>-dependent activity for FMN and FAD reduction, and to function as a promising recycling system for FMNH<sub>2</sub> supply to flavoenzymes for chemical synthesis, giving a total turnover number over 10 million when coupled with an Old Yellow Enzyme ene reductase. </p>


Author(s):  
K. Seelbach ◽  
M. P. J. van Deurzen ◽  
F. van Rantwijk ◽  
R. A. Sheldon ◽  
U. Kragl

2020 ◽  
Author(s):  
Shiny Joseph Srinivasan ◽  
Sarah Cleary ◽  
Caroline Paul ◽  
Miguel A. Ramirez ◽  
Kylie Vincent

<p>Robust [NiFe] hydrogenase 1 (Hyd1) from <i>Escherichia coli</i> is shown to have non-native, H<sub>2</sub>-dependent activity for FMN and FAD reduction, and to function as a promising recycling system for FMNH<sub>2</sub> supply to flavoenzymes for chemical synthesis, giving a total turnover number over 10 thousand when coupled with an Old Yellow Enzyme ene reductase. </p>


Author(s):  
Oscar Real Real ◽  
Moises J. Castro-Toscano ◽  
Julio Cesar Rodríguez-Quiñonez ◽  
Oleg Serginyenko ◽  
Daniel Hernández-Balbuena ◽  
...  

Surface measurement systems (SMS) allow accurate measurements of surface geometry for three-dimensional computational models creation. There are cases where contact avoidance is needed; these techniques are known as non-contact surface measurement techniques. To perform non-contact surface measurements there are different operating modes and technologies, such as lasers, digital cameras, and integration of both. Each SMS is classified by its operation mode to get the data, so it can be divided into three basic groups: point-based techniques, line-based techniques, and area-based techniques. This chapter provides useful information about the different types of non-contact surface measurement techniques, theory, basic equations, system implementation, actual research topics, engineering applications, and future trends. This chapter is particularly valuable for students, teachers, and researchers that want to implement a vision system and need an introduction to all available options in order to use the most convenient for their purpose.


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