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Journal of Biotechnology

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https://www.readbyqxmd.com/read/28625680/plant-made-potyvirus-like-particles-used-for-log-increasing-antibody-sensing-capacity
#1
Ivonne González-Gamboa, Pilar Manrique, Flora Sánchez, Fernando Ponz
Deployment of the elongated flexuous virions of Turnip mosaic virus (TuMV), a potyvirus, for peptide display on their external surface has been previously reported by us. Nonetheless, both in TuMV and other potyviruses some peptides hinder the ability of the virus to infect host plants. We found that a peptide derived from the human thrombin receptor (TR) inhibited TuMV infectivity. In an effort to get around this problem, TuMV virus-like particles (VLPs) were produced in plants by transient high-level expression of wild-type or recombinant coat protein (CP)...
June 15, 2017: Journal of Biotechnology
https://www.readbyqxmd.com/read/28625679/phenotype-databases-for-genetic-screens-in-human-cells
#2
Benedikt Rauscher, Erica Valentini, Ulrike Hardeland, Michael Boutros
Genetic screens are powerful tools to identify components that make up biological systems. Perturbations introduced by methods such as RNA interference (RNAi) or CRISPR/Cas9-mediated genome editing lead to biological phenotypes that can be examined to understand the molecular function of genes in the cell. Over the years, many of such experiments have been conducted providing a wealth of knowledge about genotype-to-phenotype relationships. These data are a rich source of information and it is in a common interest to make them available in a simplified and integrated format...
June 15, 2017: Journal of Biotechnology
https://www.readbyqxmd.com/read/28625678/rapid-protein-production-from-stable-cho-cell-pools-using-plasmid-vector-and-the-cumate-gene-switch
#3
Adeline Poulain, Sylvie Perret, Félix Malenfant, Alaka Mullick, Bernard Massie, Yves Durocher
To rapidly produce large amounts of recombinant proteins, the generation of stable Chinese Hamster Ovary (CHO) cell pools represents a useful alternative to large-scale transient gene expression (TGE). We have developed a cell line (CHO(BRI/rcTA)) allowing the inducible expression of recombinant proteins, based on the cumate gene switch. After the identification of optimal plasmid DNA topology (supercoiled vs linearized plasmid) for PEIpro™ mediated transfection and of optimal conditions for methionine sulfoximine (MSX) selection, we were able to generate CHO(BRI/rcTA) pools producing high levels of recombinant proteins...
June 15, 2017: Journal of Biotechnology
https://www.readbyqxmd.com/read/28624378/glucose-triggered-enhanced-solubilisation-release-and-cytotoxicity-of-poorly-water-soluble-anti-cancer-drugs-fromt1307-micelles
#4
Pooja Patidar, Sadafara A Pillai, Urjita Sheth, Pratap Bahadur, Anita Bahadur
Tetronic(®) 1307 (here after written as T1307) is a hydrophilic ethylene oxide-propylene oxide (EO-PO) star block copolymer with long EO chains (Total MW- 18000 and 70% EO). Although biocompatible, its use as a nanocarrier is restricted owing to its high critical micelle concentration (CMC) and temperature (CMT). We examined if the addition of glucose, a common pharmaceutical ingredient promotes micellization. Scattering and thermal studies show formation of stable unimodal micelles and cloud point (CP) decreased linearly...
June 15, 2017: Journal of Biotechnology
https://www.readbyqxmd.com/read/28624377/evaluation-of-a-biomimetic-3d-substrate-based-on-the-human-elastin-like-polypeptides-helps-model-system-for-elastolytic-activity-detection
#5
Lucia Corich, Marina Busetti, Vincenzo Petix, Sabina Passamonti, Antonella Bandiera
Elastin is a fibrous protein that confers elasticity to tissues such as skin, arteries and lung. It is extensively cross-linked, highly hydrophobic and insoluble. Nevertheless, elastin can be hydrolysed by bacterial proteases in infectious diseases, resulting in more or less severe tissue damage. Thus, development of substrates able to reliably and specifically detect pathogen-secreted elastolytic activity is needed to improve the in vitro evaluation of the injury that bacterial proteases may provoke. In this work, two human biomimetic elastin polypeptides, HELP and HELP1, as well as the matrices derived from HELP, have been probed as substrates for elastolytic activity detection...
June 14, 2017: Journal of Biotechnology
https://www.readbyqxmd.com/read/28627388/improved-soluble-bacterial-expression-and-properties-of-the-recombinant-flavonoid-glucosyltransferase-ugt73g1-from-allium-cepa
#6
Ruxin Cai, Caihong Chen, Yan Li, Kaiyan Sun, Fangfang Zhou, Kequan Chen, Honghua Jia
Glycosylation of quercetin using flavonol-specific glycosyltransferases offers an alternate method for isoquercitrin production. Obtaining sufficient quantities of bioactive enzymes is an important prerequisite for highly effective biocatalysis and biotransformation. In this study, a codon-optimized gene for the flavonoid glucosyltransferase UGT73G1 from Allium cepa was heterologously expressed in the preferred prokaryotic expression host Escherichia coli. By combining expression as a fusion protein with 6-histidine tags with coexpression with molecular chaperones, increased soluble expression of UGT73G1 was achieved in E...
June 13, 2017: Journal of Biotechnology
https://www.readbyqxmd.com/read/28619616/activity-independent-screening-of-secreted-proteins-using-split-gfp
#7
Andreas Knapp, Myriam Ripphahn, Kristina Volkenborn, Pia Skoczinski, Karl-Erich Jaeger
The large-scale industrial production of proteins requires efficient secretion, as provided, for instance, by the Sec system of Gram-positive bacteria. Protein engineering approaches to optimize secretion often require the screening of large libraries, e.g. comprising a target protein fused to many different signal peptides. Respective high-throughput screening methods are usually based on photometric or fluorimetric assays enabling fast and simple determination of enzymatic activities. Here, we report on an alternative method for quantification of secreted proteins based on the split GFP assay...
June 12, 2017: Journal of Biotechnology
https://www.readbyqxmd.com/read/28610997/identification-of-multienzymatic-complexes-in-the-clonostachys-byssicola-secretomes-produced-in-response-to-different-lignocellulosic-carbon-sources
#8
Helder Andrey Rocha Gomes, Adelson Joel da Silva, Diana Paola Gómez-Mendoza, Agenor Castro Moreira Dos Santos Júnior, Nicholas de Mojana di Cologna, Rosane Mansan Almeida, Robert Neil Gerard Miller, Wagner Fontes, Marcelo Valle de Sousa, Carlos André Ornelas Ricart, Edivaldo Ximenes Ferreira Filho
Multienzymatic complexes with plant lignocellulose-degrading activities have recently been identified in filamentous fungi secretomes. Such complexes have potential biotechnological applications in the degradation of agro-industrial residues. Fungal species from the Clonostachys genus have been intensively investigated as biocontrol agents; however so far their use as producers of lignocellulose-degrading enzymes has not been extensively explored. Secretomes of Clonostachys byssicola following growth on different carbon sources (passion fruit peel, soybean hulls, cotton gin trash, banana stalk, sugarcane bagasse, orange peel, and a composition of soybean hulls: cotton gin trash:orange peel) were subjected to enzymatic assays...
June 10, 2017: Journal of Biotechnology
https://www.readbyqxmd.com/read/28610996/from-cheminformatics-to-structure-based-design-web-services-and-desktop-applications-based-on-the-naomi-library
#9
Stefan Bietz, Therese Inhester, Florian Lauck, Kai Sommer, Mathias M von Behren, Rainer Fährrolfes, Florian Flachsenberg, Agnes Meyder, Eva Nittinger, Thomas Otto, Matthias Hilbig, Karen T Schomburg, Andrea Volkamer, Matthias Rarey
Nowadays, computational approaches are an integral part of life science research. Problems related to interpretation of experimental results, data analysis, or visualization tasks highly benefit from the achievements of the digital era. Simulation methods facilitate predictions of physicochemical properties and can assist in understanding macromolecular phenomena. Here, we will give an overview of the methods developed in our group that aim at supporting researchers from all life science areas. Based on state-of-the-art approaches from structural bioinformatics and cheminformatics, we provide software covering a wide range of research questions...
June 10, 2017: Journal of Biotechnology
https://www.readbyqxmd.com/read/28606611/bioinfra-prot-a-comprehensive-proteomics-workflow-including-data-standardization-protein-inference-expression-analysis-and-data-publication
#10
Michael Turewicz, Michael Kohl, Maike Ahrens, Gerhard Mayer, Julian Uszkoreit, Wael Naboulsi, Thilo Bracht, Dominik A Megger, Barbara Sitek, Katrin Marcus, Martin Eisenacher
The analysis of high-throughput mass spectrometry-based proteomics data must address the specific challenges of this technology. To this end, the comprehensive proteomics workflow offered by the de.NBI service center BioInfra.Prot provides indispensable components for the computational and statistical analysis of this kind of data. These components include tools and methods for spectrum identification and protein inference, protein quantification, expression analysis as well as data standardization and data publication...
June 9, 2017: Journal of Biotechnology
https://www.readbyqxmd.com/read/28606610/data-management-and-data-enrichment-for-systems-biology-projects
#11
Ulrike Wittig, Maja Rey, Andreas Weidemann, Wolfgang Müller
Collecting, curating, interlinking, and sharing high quality data are central to de.NBI-SysBio, the systems biology data management service center within the de.NBI network (German Network for Bioinformatics Infrastructure). The work of the center is guided by the FAIR principles for scientific data management and stewardship. FAIR stands for the four foundational principles Findability, Accessibility, Interoperability, and Reusability which were established to enhance the ability of machines to automatically find, access, exchange and use data...
June 9, 2017: Journal of Biotechnology
https://www.readbyqxmd.com/read/28602792/comparative-studies-of-al-3-ions-and-al2o3-nanoparticles-on-growth-and-metabolism-of-cabbage-seedlings
#12
Nimisha Amist, N B Singh, Kavita Yadav, S C Singh, J K Pandey
In the present study, we compared the effects of Al(3+) ions and alumina (Al2O3) nanoparticles (NPs) on growth and biochemical parameters of cabbage seedlings. The seedlings were treated with A=698.8μM Al(3+)ions and A1=101.8μM, A2=253.8μM, A3=507.7μM, A4=1.02mM, A5=2.17mM NPs of Al2O3 in 700mL Hoagland solution. The untreated seedlings were taken as control. It was observed that aluminium ions were phytotoxic and adversely affected seedling growth and biochemical parameters of the test crop with stunting of the stem growth, while lower doses of alumina NPs enhanced seedling growth, pigments, sugar and protein contents of cabbage (Brassica oleracea var...
June 8, 2017: Journal of Biotechnology
https://www.readbyqxmd.com/read/28602791/from-plant-genomes-to-phenotypes
#13
Marie Bolger, Rainer Schwacke, Heidrun Gundlach, Thomas Schmutzer, Jinbo Chen, Daniel Arend, Markus Oppermann, Stephan Weise, Matthias Lange, Fabio Fiorani, Manuel Spannagl, Uwe Scholz, Klaus Mayer, Björn Usadel
Recent advances in sequencing technologies have greatly accelerated the rate of plant genome and applied breeding research. Despite this advancing trend, plant genomes continue to present numerous difficulties to the standard tools and pipelines not only for genome assembly but also gene annotation and downstream analysis. Here we give a perspective on tools, resources and services necessary to assemble and analyze plant genomes and link them to plant phenotypes.
June 8, 2017: Journal of Biotechnology
https://www.readbyqxmd.com/read/28595834/the-completely-annotated-genome-and-comparative-genomics-of-the-peptoniphilaceae-bacterium-str-ing2-d1g-a-novel-acidogenic-bacterium-isolated-from-a-mesophilic-biogas-reactor
#14
Geizecler Tomazetto, Sarah Hahnke, Thomas Langer, Daniel Wibberg, Jochen Blom, Irena Maus, Alfred Pühler, Michael Klocke, Andreas Schlüter
The strictly anaerobic Peptoniphilaceae bacterium str. ING2-D1G (=DSM 28672=LMG 28300) was isolated from a mesophilic laboratory-scale completely stirred tank biogas reactor (CSTR) continuously co-digesting maize silage, pig and cattle manure. Based on 16S rRNA gene sequence comparison, the closest described relative to this strain is Peptoniphilus obesi ph1 showing 91.2% gene sequence identity, the most closely related species with a validly published name is Peptoniphilus indolicus DSM 20464(T) whose 16S rRNA gene sequence is 90...
June 5, 2017: Journal of Biotechnology
https://www.readbyqxmd.com/read/28591619/high-hydrostatic-pressure-encapsulation-of-doxorubicin-in-ferritin-nanocages-with-enhanced-efficiency
#15
Qi Wang, Chun Zhang, Liping Liu, Zenglan Li, Fangxia Guo, Xiunan Li, Jian Luo, Dawei Zhao, Yongdong Liu, Zhiguo Su
Human ferritin (HFn) nanocaging is becoming an appealing platform for anticancer drugs delivery. However, protein aggregation always occurs during the encapsulation process, resulting in low production efficiency. A new approach using high hydrostatic pressure (HHP) was explored in this study to overcome the problem of loading doxorubicin (DOX) in HFn. At the pressure of 500MPa and pH 5.5, DOX molecules were found to be encapsulated into HFn. Meanwhile, combining it with an additive of 20mM arginine completely inhibited precipitation and aggregation, resulting in highly monodispersed nanoparticles with almost 100% protein recovery...
June 4, 2017: Journal of Biotechnology
https://www.readbyqxmd.com/read/28587829/pegylation-with-the-thiosuccinimido-butylamine-linker-significantly-increases-the-stability-of-haloalkane-dehalogenase-dhaa
#16
Yuan-Zhong Zhao, Wei-Li Yu, He Zheng, Xuan Guo, Nan Guo, Tao Hu, Jin-Yi Zhong
Haloalkane dehalogenase (HLD) can catalyze the hydrolytic dehalogenation of halogenated compounds. However, HLD suffers from the poor stability to resist the environmental stress. PEGylation is an effective approach to enhance the stability of enzymes. The linker is an important stabilization factor of PEGylation. Thus, the linkers of the PEGylated HLD were optimized to improve the stability of HLD in the present study. The PEGylated haloalkane dehalogenase DhaAs with methylamine (Ml), carbamate (Cm) and thiosuccinimido butylamine (Tb) linkers were prepared, respectively...
June 3, 2017: Journal of Biotechnology
https://www.readbyqxmd.com/read/28583821/cloning-and-characterization-of-thermostable-groel-groes-homologues-from-geobacillus-thermopakistaniensis-and-their-applications-in-protein-folding
#17
Raza Ashraf, Majida Atta Muhammad, Naeem Rashid, Muhammad Akhtar
The chaperonin genes encoding GroELGt (ESU72018) and GroESGt (ESU72017), homologues of bacterial GroEL and GroES, from Geobacillus thermopakistaniensis were cloned and expressed in Escherichia coli. The purified gene products possessed the ATPase activity similar to other bacterial and eukaryal counterparts. Recombinant GroELGt and GroESGt were able to refold the denatured insoluble aggregates of α-amylase from Bacillus licheniformis into soluble and active form. Furthermore, GroELGt and GroESGt successfully enhanced the thermostability of porcine heart malate dehydrogenase...
June 2, 2017: Journal of Biotechnology
https://www.readbyqxmd.com/read/28577916/complete-genome-sequence-of-bacillus-sp-275-producing-extracellular-cellulolytic-xylanolytic-and-ligninolytic-enzymes
#18
Gyeongtaek Gong, Seil Kim, Sun-Mi Lee, Han Min Woo, Tai Hyun Park, Youngsoon Um
Technologies for degradation of three major components of lignocellulose (e.g. cellulose, hemicellulose and lignin) are needed to efficiently utilize lignocellulose. Here, we report Bacillus sp. 275 isolated from a mudflat exhibiting various lignocellulolytic activities including cellulase, xylanase, laccase and peroxidase in the cell culture supernatant. The complete genome of Bacillus sp. 275 strain contains 3832 protein cording sequences and an average G+C content of 46.32% on one chromosome (4045,581bp) and one plasmid (6389bp)...
May 31, 2017: Journal of Biotechnology
https://www.readbyqxmd.com/read/28576392/enzymatic-tailoring-of-oleuropein-from-olea-europaea-leaves-and-product-identification-by-hrms-ms-spectrometry
#19
Efstratios Nikolaivits, Aikaterini Termentzi, Alexios-Leandros Skaltsounis, Nikolas Fokialakis, Evangelos Topakas
Oleuropein, a bioactive compound found in all parts of olive tree, especially in leaves and branches, presents numerous health promoting properties that increase research and market interest the last few years. In addition, oleuropein degradation products, such as hydroxytyrosol, elenolic acid, and the aglycones also exhibit biological activities with different properties compared to the starting compound. Under this view, a commercial lipase preparation Lipolase 100L and a thermophilic β-glucosidase from Myceliophthora thermophila were used for the regioselective hydrolysis of oleuropein towards the production of the corresponding biologically active compounds...
May 30, 2017: Journal of Biotechnology
https://www.readbyqxmd.com/read/28559010/openms-a-platform-for-reproducible-analysis-of-mass-spectrometry-data
#20
Julianus Pfeuffer, Timo Sachsenberg, Oliver Alka, Mathias Walzer, Alexander Fillbrunn, Lars Nilse, Oliver Schilling, Knut Reinert, Oliver Kohlbacher
BACKGROUND: In recent years, several mass spectrometry-based omics technologies emerged to investigate qualitative and quantitative changes within thousands of biologically active components such as proteins, lipids and metabolites. The research enabled through these methods potentially contributes to the diagnosis and pathophysiology of human diseases as well as to the clarification of structures and interactions between biomolecules. Simultaneously, technological advances in the field of mass spectrometry leading to an ever increasing amount of data, demand high standards in efficiency, accuracy and reproducibility of potential analysis software...
May 27, 2017: Journal of Biotechnology
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