scholarly journals Open-Source bioreactor controller for bacterial protein expression

2018 ◽  
Author(s):  
George Catalin Marinescu ◽  
Roua Gabriela Popescu
Keyword(s):  
Protein Expression ◽  
Open Source ◽  
Laboratory Experiments ◽  
Environmental Parameters ◽  
Cost Effective ◽  
Stirred Tank ◽  
Bacterial Protein ◽  
Process Data ◽  
Stirred Tank Bioreactor ◽  
E Coli

Growing microorganisms for laboratory experiments or industrial biotechnological process is an activity which involves the use of bioreactors. Although there are many commercially available equipment, most of them lack the flexibility of an open-source solution. This work proposes a cost effective Arduino based bioreactor controller for growing suspended microbial cells. To exemplify its functionality, this study provides the parts list and schematics necessary to make a functional laboratory scale bench top stirred tank bioreactor. Using the built prototype, an E. coli culture is grown maintaining the preset parameters, protein expression is induced and culture is harvested at preset culture density. Automatically recorded process data shows stable environmental parameters and reliable bacterial growing curve.

scholarly journals Open-Source bioreactor controller for bacterial protein expression

2018 ◽  
Author(s):  
George Catalin Marinescu ◽  
Roua Gabriela Popescu
Keyword(s):  
Protein Expression ◽  
Open Source ◽  
Laboratory Experiments ◽  
Environmental Parameters ◽  
Cost Effective ◽  
Stirred Tank ◽  
Bacterial Protein ◽  
Process Data ◽  
Stirred Tank Bioreactor ◽  
E Coli

Growing microorganisms for laboratory experiments or industrial biotechnological process is an activity which involves the use of bioreactors. Although there are many commercially available equipment, most of them lack the flexibility of an open-source solution. This work proposes a cost effective Arduino based bioreactor controller for growing suspended microbial cells. To exemplify its functionality, this study provides the parts list and schematics necessary to make a functional laboratory scale bench top stirred tank bioreactor. Using the built prototype, an E. coli culture is grown maintaining the preset parameters, protein expression is induced and culture is harvested at preset culture density. Automatically recorded process data shows stable environmental parameters and reliable bacterial growing curve.

scholarly journals Luffa cylindrica Immobilized with Aspergillus terreus QMS-1: an Efficient and Cost-Effective Strategy for the Removal of Congo Red using Stirred Tank Reactor

2020 ◽  
Vol 69 (2) ◽  
pp. 193-203
Author(s):  
QANDEEL LARAIB ◽  
MARYAM SHAFIQUE ◽  
NUSRAT JABEEN ◽  
SEHAR AFSHAN NAZ ◽  
HAFIZ RUB NAWAZ ◽  
...  
Keyword(s):  
Congo Red ◽  
Textile Industry ◽  
Aspergillus Terreus ◽  
Quantitative Estimation ◽  
Oxygen Demand ◽  
Cost Effective ◽  
Stirred Tank ◽  
Luffa Cylindrica ◽  
Stirred Tank Bioreactor ◽  
Efficient System

Microbial populations within the rhizosphere have been considered as prosperous repositories with respect to bioremediation aptitude. Among various environmental contaminants, effluent from textile industries holds a huge amount of noxious colored materials having high chemical oxygen demand concentrations causing ecological disturbances. The study was aimed to explore the promising mycobiome of rhizospheric soil for the degradation of azo dyes to develop an efficient system for the exclusion of toxic recalcitrants. An effluent sample from the textile industry and soil samples from the rhizospheric region of Musa acuminata and Azadirachta indica were screened for indigenous fungi to decolorize Congo red, a carcinogenic diazo dye, particularly known for its health hazards to the community. To develop a bio-treatment process, Aspergillus terreus QMS-1 was immobilized on pieces of Luffa cylindrica and exploited in stirred tank bioreactor under aerobic and optimized environment. Quantitative estimation of Congo red decolorization was carried out using UV-Visible spectrophotometer. The effects of fungal immobilization and biosorption on the native structure of Luffa cylindrica were evaluated using a scanning electron microscope. A. terreus QMS-1 can remove (92%) of the dye at 100 ppm within 24 h in the presence of 1% glucose and 1% ammonium sulphate at pH 5.0. The operation of the bioreactor in a continuous flow for 12 h with 100 ppm of Congo red dye in simulated textile effluent resulted in 97% decolorization. The stirred tank bioreactor was found to be a dynamic, well maintained, no sludge producing approach for the treatment of textile effluents by A. terreus QMS-1 of the significant potential for decolorization of Congo red.

Kinetics and modelling of batch fermentation for the production of organic solvent tolerant and thermostable lipase by recombinant E. coli / Organik çözücü toleranslı ve ısıya dayanıklı rekombinan E. coli lipaz üretiminin kinetiği ve grup fermentasyonu modellemesi

2015 ◽  
Vol 40 (4) ◽  
Author(s):  
Arbakariya Bin Ariff ◽  
Rubina Nelofer ◽  
Raja Nor Zaliha Raja Abdul Rahman ◽  
Mahiran Basri
Keyword(s):  
Cell Growth ◽  
Shake Flask ◽  
Lipase Production ◽  
Stirred Tank ◽  
Thermostable Lipase ◽  
Stirred Tank Bioreactor ◽  
Monod Equation ◽  
E Coli ◽  
Organic Solvent Tolerant ◽  
Solvent Tolerant

AbstractObjective: Kinetics of organic solvent tolerant and thermostable lipase production by recombinant E. coli in shake flask level and 2 L stirred tank bioreactor level was studied to observe the variations of important kinetic parameters at two different levels of bioprocess.Methods: Unstructured models based on Monod equation for growth and Luedeking-Piret equation for lipase production and glucose consumption were used to predict cell growth, lipase production and glucose utilization. The shake flask fermentation experiments were carried out at different initial glucose and yeast extract concentrations using recombinant bacterial strain E. coli BL21. Lipase production was also carried out using 2L stirred tank bioreactor for comparison.Results: In all cases, the data fitted well to the proposed models. The highest growth and lipase activity were obtained at 25 g/L glucose and 25 g/L yeast extract. Cell growth (6.42 g/L) and lipase production (65.32 IU/mL) in 2 L stirred tank bioreactor was comparable to those obtained in shake flask fermentations. The calculated value of growth associated constant (9.874 IU/g/h) was much higher than that of non-growth associated constant (0.022 IU/g/h) in bioreactor as well as in shake flasks. The values of maximum specific growth rate (μm) and glucose saturation constant (KS) for shake flask fermentations, calculated from Monod equation, were 0.476 h-1 and 5.237 g/L respectively.Conclusion: From the modelling exercise, it was concluded that the lipase production is dominantly growth associated process. The kinetic parameter values for fermentations in shake flask and 2L stirred tank bioreactor were comparable, indicating that the bioprocess could be transferred into larger scale.

Characterization and feasibility of a miniaturized stirred tank bioreactor to perform E. coli high cell density fed-batch fermentations

2011 ◽  
Vol 28 (1) ◽  
pp. 66-75 ◽  
Author(s):  
Shaukat Ali ◽  
Miguel Angel Perez-Pardo ◽  
Jean P. Aucamp ◽  
Alan Craig ◽  
Daniel G. Bracewell ◽  
...  
Keyword(s):  
Cell Density ◽  
High Cell Density ◽  
Stirred Tank ◽  
High Cell ◽  
Fed Batch ◽  
Stirred Tank Bioreactor ◽  
E Coli

Pollution, Toxicity and Carcinogenicity of Organic Dyes and their Catalytic Bio-Remediation

2019 ◽  
Vol 25 (34) ◽  
pp. 3645-3663 ◽  
Author(s):  
Muhammad Ismail ◽  
Kalsoom Akhtar ◽  
M.I. Khan ◽  
Tahseen Kamal ◽  
Murad A. Khan ◽  
...  
Keyword(s):  
Water Pollution ◽  
Textile Industry ◽  
Pathogenic Bacteria ◽  
Diarrheal Disease ◽  
Organic Dyes ◽  
Chemical Reduction ◽  
Cost Effective ◽  
Agricultural Runoff ◽  
E Coli ◽  
Sanitation Services

: Water pollution due to waste effluents of the textile industry is seriously causing various health problems in humans. Water pollution with pathogenic bacteria, especially Escherichia coli (E. coli) and other microbes is due to the mixing of fecal material with drinking water, industrial and domestic sewage, pasture and agricultural runoff. Among the chemical pollutants, organic dyes due to toxic nature, are one of the major contaminants of industrial wastewater. Adequate sanitation services and drinking quality water would eliminate 200 million cases of diarrhea, which results in 2.1 million less deaths caused by diarrheal disease due to E. coli each year. Nanotechnology is an excellent platform as compared to conventional treatment methods of water treatment and remediation from microorganisms and organic dyes. In the current study, toxicity and carcinogenicity of the organic dyes have been studied as well as the remediation/inactivation of dyes and microorganism has been discussed. Remediation by biological, physical and chemical methods has been reviewed critically. A physical process like adsorption is cost-effective, but can’t degrade dyes. Biological methods were considered to be ecofriendly and cost-effective. Microbiological degradation of dyes is cost-effective, eco-friendly and alternative to the chemical reduction. Besides, certain enzymes especially horseradish peroxidase are used as versatile catalysts in a number of industrial processes. Moreover, this document has been prepared by gathering recent research works related to the dyes and microbial pollution elimination from water sources by using heterogeneous photocatalysts, metal nanoparticles catalysts, metal oxides and enzymes.

Quality Improvement of the DNA extracted by boiling method in Gram negative bacteria

2017 ◽  
Vol 6 (04) ◽  
pp. 5347 ◽  
Author(s):  
Omar B. Ahmed* ◽  
Anas S. Dablool
Keyword(s):  
Dna Extraction ◽  
Control Method ◽  
Extraction Procedure ◽  
Cost Effective ◽  
High Yield ◽  
Gram Negative Bacteria ◽  
Bacterial Dna ◽  
Gram Negative ◽  
E Coli

Several methods of Deoxyribonucleic acid (DNA) extraction have been applied to extract bacterial DNA. The amount and the quality of the DNA obtained for each one of those methods are variable. The study aimed to evaluate bacterial DNA extraction using conventional boiling method followed by alcohol precipitation. DNA extraction from Gram negative bacilli was extracted and precipitated using boiling method with further precipitation by ethanol. The extraction procedure performed using the boiling method resulted in high DNA yields for both E. coli and K. pneumoniae bacteria in (199.7 and 285.7μg/ml, respectively) which was close to control method (229.3 and 440.3μg/ml). It was concluded that after alcohol precipitation boiling procedure was easy, cost-effective, and applicable for high-yield quality of DNA in Gram-negative bacteria.

scholarly journals Comparison of long-read sequencing technologies in interrogating bacteria and fly genomes

2021 ◽  
Author(s):  
Eric S Tvedte ◽  
Mark Gasser ◽  
Benjamin C Sparklin ◽  
Jane Michalski ◽  
Carl E Hjelmen ◽  
...  
Keyword(s):  
Bacterial Genome ◽  
Hybrid Approach ◽  
Cost Effective ◽  
Fruit Fly ◽  
Drosophila Ananassae ◽  
Whole Genome Sequencing Data ◽  
Sequencing Data ◽  
E Coli ◽  
Hybrid Approaches ◽  
Long Read

Abstract The newest generation of DNA sequencing technology is highlighted by the ability to generate sequence reads hundreds of kilobases in length. Pacific Biosciences (PacBio) and Oxford Nanopore Technologies (ONT) have pioneered competitive long read platforms, with more recent work focused on improving sequencing throughput and per-base accuracy. We used whole-genome sequencing data produced by three PacBio protocols (Sequel II CLR, Sequel II HiFi, RS II) and two ONT protocols (Rapid Sequencing and Ligation Sequencing) to compare assemblies of the bacteria Escherichia coli and the fruit fly Drosophila ananassae. In both organisms tested, Sequel II assemblies had the highest consensus accuracy, even after accounting for differences in sequencing throughput. ONT and PacBio CLR had the longest reads sequenced compared to PacBio RS II and HiFi, and genome contiguity was highest when assembling these datasets. ONT Rapid Sequencing libraries had the fewest chimeric reads in addition to superior quantification of E. coli plasmids versus ligation-based libraries. The quality of assemblies can be enhanced by adopting hybrid approaches using Illumina libraries for bacterial genome assembly or polishing eukaryotic genome assemblies, and an ONT-Illumina hybrid approach would be more cost-effective for many users. Genome-wide DNA methylation could be detected using both technologies, however ONT libraries enabled the identification of a broader range of known E. coli methyltransferase recognition motifs in addition to undocumented D. ananassae motifs. The ideal choice of long read technology may depend on several factors including the question or hypothesis under examination. No single technology outperformed others in all metrics examined.

scholarly journals Regulatory Influence of Galanin and GALR1/GALR2 Receptors on Inflamed Uterus Contractility in Pigs

2021 ◽  
Vol 22 (12) ◽  
pp. 6415
Author(s):  
Barbara Jana ◽  
Jarosław Całka ◽  
Bartosz Miciński
Keyword(s):  
Protein Expression ◽  
Domestic Animals ◽  
Receptor Subtypes ◽  
E Coli ◽  
Regulatory Influence ◽  
Pretreatment Period ◽  
Uterine Inflammation ◽  
Myometrial Contractility

Uterine inflammation is a very common and serious pathology in domestic animals, the development and progression of which often result from disturbed myometrial contractility. We investigated the effect of inflammation on the protein expression of galanin (GAL) receptor subtypes (GALR)1 and GALR2 in myometrium and their role in the contractile amplitude and frequency of an inflamed gilt uterus. The gilts of the E. coli and SAL groups received E. coli suspension or saline in their uteri, respectively, and only laparotomy was performed (CON group). Eight days later, the E. coli group developed severe acute endometritis and lowered GALR1 protein expression in the myometrium. Compared to the pretreatment period, GAL (10−7 M) reduced the amplitude and frequency in myometrium and endometrium/myometrium of the CON and SAL groups, the amplitude in both stripes and frequency in endometrium/myometrium of the E. coli group. In this group, myometrial frequency after using GAL increased, and it was higher than in other groups. GALR2 antagonist diminished the decrease in amplitude in myometrium and the frequency in endometrium/myometrium (SAL, E. coli groups) induced by GAL (10−7 M). GALR1/GALR2 antagonist and GAL (10−7 M) reversed the decrease in amplitude and diminished the decrease in frequency in both examined stripes (CON, SAL groups), and diminished the drop in amplitude and abolished the rise in the frequency in the myometrium (E. coli group). In summary, the inflammation reduced GALR1 protein expression in pig myometrium, and GALR1 and GALR2 participated in the contractile regulation of an inflamed uterus.

scholarly journals The contribution of Geomatics to increase safety and security in ports

2021 ◽  
Author(s):  
Maurizio Soldani
Keyword(s):  
Atmospheric Pressure ◽  
Research Team ◽  
Environmental Parameters ◽  
Sea Surface ◽  
Port Security ◽  
Process Data ◽  
Water Quality Control ◽  
Port Authorities ◽  
Graphical Interfaces ◽  
Port Areas

AbstractIn this paper, the advantages achievable from the use of two prototype systems that are being developed to increase safety and security in ports are shown. Both systems start by monitoring environmental parameters in harbors, and then process data acquired. The first system has been conceived to be helpful to port communities (port authorities, pilots) to optimize harbor waterside management (ship’s navigation and cargo, dock performances, boat moorings, refloating of stranded ships, water quality control). By monitoring and processing sea level and atmospheric pressure in port areas, it can help port communities, e.g., to choose the best time when a ship with a certain draft can enter or leave a harbor, or to plan the best route inside the basin for that vessel (port safety). The second system, instead, has been designed for port protection purposes: by monitoring and processing the Earth’s magnetic field below the sea surface in harbors (where the natural field is disturbed by a high artificial component), it is able to detect the possible presence of intruders (e.g., divers) swimming underwater in prohibited areas (port security). Here, the results of monitoring and processing activities of the two systems performed in Livorno and La Spezia harbors are shown (Italy). The processing procedures and the graphical interfaces of the systems are based on applications under development by the research team the author belongs to, by using C# and C++ languages; Matlab environment has been employed for simulations.

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