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Bioengineered

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https://www.readbyqxmd.com/read/29161975/a-gene-selection-approach-based-on-the-fisher-linear-discriminant-and-the-neighborhood-rough-set
#1
Lin Sun, Xiaoyu Zhang, Jiucheng Xu, Wei Wang, Ruonan Liu
In recent years, tumor classification based on gene expression profiles has drawn great attention, and related research results have been widely applied to the clinical diagnosis of major gene diseases. These studies are of tremendous importance for accurate cancer diagnosis and subtype recognition. However, the microarray data of gene expression profiles have small samples, high dimensionality, large noise and data redundancy. To further improve the classification performance of microarray data, a gene selection approach based on the Fisher linear discriminant (FLD) and the neighborhood rough set (NRS) is proposed...
November 22, 2017: Bioengineered
https://www.readbyqxmd.com/read/29130792/so-long-farewell-auf-wiedersehen-adieu%C3%A2
#2
Roy D Sleator
No abstract text is available yet for this article.
November 13, 2017: Bioengineered
https://www.readbyqxmd.com/read/29095664/graphene-based-scaffolds-on-bone-tissue-engineering
#3
Nasrin Shadjou, Mohammad Hasanzadeh, Balal Khalilzadeh
Tissue engineering has been emerging as a valid approach to the current therapies for bone regeneration/substitution. Tissue-engineered bone constructs have the potential to alleviate the demand arising from the shortage of suitable autograft and allograft materials for augmenting bone healing. Scaffolds play a central role in tissue engineering research, they not only provide as structural support for specific cells but also provide as the templates to guide new tissue growth and construction. In this survey we describe application of graphene based nano-biomaterials for bone tissue engineering...
November 2, 2017: Bioengineered
https://www.readbyqxmd.com/read/29091543/in-silico-design-of-a-novel-chimeric-shigella-ipab-fused-to-c-terminal-of-clostridium-perfringens-enterotoxin-as-a-vaccine-candidate
#4
Sina Arabshahi, Bahar Nayeri Fasaei, Abdollah Derakhshandeh, Aytak Novinrooz
This study aimed to design a novel chimeric protein in silico to serve as a serotype-independent vaccine candidate against Shigella. The chimera contains amino acid residues 240-460 of Shigella invasion plasmid antigen B (IpaB) and the C-terminus of Clostridium perfringens enterotoxin (C-CPE). Amino acid sequences of 537 peptide linkers were obtained from two protein linker databases. 3D structures of IpaB-CPE290-319, IpaB-CPE184-319, IpaB-CPE194-319 and 537 newly designed IpaB-linker-CPE290-319 constructs with varying linker regions were predicted...
November 1, 2017: Bioengineered
https://www.readbyqxmd.com/read/29072513/bio-invasive-ascidians-in-ireland-a-threat-for-the-shellfish-industry-but-also-a-source-of-high-added-value-products
#5
Satheesh Kumar Palanisamy, Olivier P Thomas, Grace McCormack
In October 2016, a rapid assessment survey of ascidian species was conducted in shellfish farms at Killary Fjord, in the west of Ireland. Two non-indigenous solitary ascidians Ascidiella aspersa and Corella eumoyta were recorded for the first time in shellfish farms at this location. Both invasive ascidians have the potential to greatly reduce mussel production in Killary Fjord by competing with shellfish for food and habitat. Their high abundance also causes an increase in maintenance costs leading to economic losses for aquaculture farmers...
October 26, 2017: Bioengineered
https://www.readbyqxmd.com/read/28910565/an-in-vivo-study-adjuvant-activity-of-poly-n-vinyl-2-pyrrolidone-co-acrylic-acid-on-immune-responses-against-melanoma-synthetic-peptide
#6
Kadriye Kızılbey, Banu Mansuroğlu, Serap Derman, Zeynep Mustafaeva Akdeste
INTRODUCTION: Peptides have been studied as an important class of components in medicine to control many major diseases with vaccination. Polymers as adjuvants are capable of enhancing the vaccine potential against various diseases by improving the delivery of antigens, and they reduce the booster doses of vaccines. In brief, polymers are promising candidates for peptide-based vaccine delivery platforms. The purpose of the present study was to create a possible alternative approach in the treatment of malignant melanoma and/or to prevent metastasis of melanoma...
September 14, 2017: Bioengineered
https://www.readbyqxmd.com/read/28902573/preparation-of-umami-octopeptide-with-recombined-escherichia-coli-feasibility-and-challenges
#7
Liming Zhao, Yin Zhang, Chandrasekar Venkitasamy, Zhongli Pan, Longyi Zhang, Siya Guo, Wei Xiong, Hu Xia, Liu Wenlong, Gou Xinhua
The taste of umami peptide H-Lys-Gly-Asp-Glu-Glu-Ser-Leu-Ala-OH (LGAGGSLA) is controversial. One possible reason for this controversy is the use of chemically synthesized LGAGGSLA to confirm its taste. To explore other ways to further confirm the flavor of LGAGGSLA, we developed a new strategy to prepare a bio-source peptide by adopting a gene engineering method to express LGAGGSLA in recombinant Escherichia coli. In our previous work, we structured the LGAGGSLA recombinant expression system and optimized the culturing conditions for preparing a fusion protein...
September 13, 2017: Bioengineered
https://www.readbyqxmd.com/read/28892417/green-biologics-the-algal-chloroplast-as-a-platform-for-making-biopharmaceuticals
#8
Henry N Taunt, Laura Stoffels, Saul Purton
Most commercial production of recombinant pharmaceutical proteins involves the use of mammalian cell lines, E. coli or yeast as the expression host. However, recent work has demonstrated the potential of eukaryotic microalgae as platforms for light-driven synthesis of such proteins. Expression in the algal chloroplast is particularly attractive since this organelle contains a minimal genome suitable for rapid engineering using synthetic biology approaches; with transgenes precisely targeted to specific genomic loci and amenable to high-level, regulated and stable expression...
September 11, 2017: Bioengineered
https://www.readbyqxmd.com/read/28886289/optimization-of-saccharification-potential-of-recombinant-xylanase-from-bacillus-licheniformis
#9
Muhammad N Aftab, Asma Zafar, Irfana Iqbal, Afshan Kaleem, Khalid M Zia, Ali R Awan
Saccharification potential of xylanase enzyme cloned from Bacillus licheniformis into E. coli BL21 (DE3) was evaluated against plant biomass for the production of bioethanol. The expression of cloned gene was studied and conditions were optimized for its large scale production. The parameters effecting enzyme production were examined in a fermenter. Recombinant xylanase has the ability to breakdown birchwood xylan to release xylose as well as the potential to treat plant biomass, such as wheat straw, rice straw, and sugarcane bagass...
September 8, 2017: Bioengineered
https://www.readbyqxmd.com/read/28886267/the-effect-of-three-novel-feature-extraction-methods-on-the-prediction-of-the-subcellular-localization-of-multi-site-virus-proteins
#10
Lei Wang, Yaou Zhao, Yuehui Chen, Dong Wang
Experimental methods play a crucial role in identifying the subcellular localization of proteins and building high-quality databases. However, more efficient, automated computational methods are required to predict the subcellular localization of proteins on a large scale. Various efficient feature extraction methods have been proposed to predict subcellular localization, but challenges remain. In this paper, three novel feature extraction methods are established to improve multi-site prediction. The first novel feature extraction method utilizes repetitive information via moving windows based on a dipeptide pseudo amino acid composition method (R-Dipeptide)...
September 8, 2017: Bioengineered
https://www.readbyqxmd.com/read/28881168/proteomic-analysis-reveals-that-a-global-response-is-induced-by-subinhibitory-concentrations-of-ampicillin
#11
Lina Xiong, Dongjiang Liao, Xinpeng Lu, He Yan, Lei Shi, Ziyao Mo
In this study, a recipient-donor co-culture system was used to research the effect of subinhibitory concentrations of antibiotics on horizontal transmission in bacteria and the influence of antibiotics on protein expression. We employed two-dimensional gel electrophoresis combined with mass spectrometry to compare the protein expression profiles in systems with or without 0.5 × the minimum inhibitory concentration of ampicillin. RT-PCR was used to assess the transcriptional levels of the differentially expressed genes...
September 7, 2017: Bioengineered
https://www.readbyqxmd.com/read/28873323/survey-of-gene-splicing-algorithms-based-on-reads
#12
Xiuhua Si, Qian Wang, Lei Zhang, Ruo Wu, Jiquan Ma
Gene splicing is the process of assembling a large number of unordered short sequence fragments to the original genome sequence as accurately as possible. Several popular splicing algorithms based on reads are reviewed in this article, including reference genome algorithms and de novo splicing algorithms (Greedy-extension, Overlap-Layout-Consensus graph, De Bruijn graph). We also discuss a new splicing method based on the MapReduce strategy and Hadoop. By comparing these algorithms, some conclusions are drawn and some suggestions on gene splicing research are made...
September 5, 2017: Bioengineered
https://www.readbyqxmd.com/read/28873007/bioengineering-of-crop-plants-for-improved-tetrahydrofolate-production
#13
Bhupendra Chaudhary, Nagendra Singh, Dhananjay K Pandey
De novo synthesis of folates in plants is tightly regulated through feedback-regulation of certain pathway catalysts. Recently, we investigated the prospects of incessant production of folates in an evolutionary conjunction, through the overexpression of feedback targeted and evolutionarily conserved heterologous E.coli dihydroneopterin aldolase (EcDHNA) in tobacco (1) . The enhanced production of folates in the transgenic lines was associated with differential allosteric regulatory cavities accessible at EcDHNA surface having critical amino-acid differences as Ile 64 (His_63), Val 70 (Phe_69), His 75 (Arg_78) and Arg 79 (Glu_72)...
September 5, 2017: Bioengineered
https://www.readbyqxmd.com/read/28873004/a-glutathione-peroxidase-from-antarctic-psychrotrophic-bacterium-pseudoalteromonas-sp-ant506-cloning-and-heterologous-expression-of-the-gene-and-characterization-of-recombinant-enzyme
#14
Yatong Wang, Han Han, Bingqing Cui, Yanhua Hou, Yifan Wang, Quanfu Wang
A glutathione peroxidase (GPx) gene, designated as PsGPx, was cloned from Antarctic psychrotrophic bacterium Pseudoalteromonas sp. ANT506 and expressed in Escherichia coli. The full-length PsGPx contained a 585-bp encoding 194 amino acids with predicted molecular masses of approx. 21.7 kDa. Multiple sequence alignments revealed that PsGPx belonged to the thioredoxin-like superfamily. PsGPx was heterologously overexpressed in E. coli, purified and characterized. The maximum catalytic temperature and pH value for recombinant PsGPx (rPsGPx) were 30°C and pH 9...
September 5, 2017: Bioengineered
https://www.readbyqxmd.com/read/28453385/performance-improvement-of-microbial-fuel-cell-mfc-using-suitable-electrode-and-bioengineered-organisms-a-review
#15
REVIEW
Payel Choudhury, Uma Shankar Prasad Uday, Tarun Kanti Bandyopadhyay, Rup Narayan Ray, Biswanath Bhunia
There is an urgent need to find an environment friendly and sustainable technology for alternative energy due to rapid depletion of fossil fuel and industrialization. Microbial Fuel Cells (MFCs) have operational and functional advantages over the current technologies for energy generation from organic matter as it directly converts electricity from substrate at ambient temperature. However, MFCs are still unsuitable for high energy demands due to practical limitations. The overall performance of an MFC depends on microorganism, appropriate electrode materials, suitable MFC designs, and optimizing process parameters which would accelerate commercialization of this technology in near future...
September 3, 2017: Bioengineered
https://www.readbyqxmd.com/read/28409998/suitability-of-various-dna-extraction-methods-for-a-traditional-chinese-paocai-system
#16
Nan Zhao, Jialiang Cai, Chuchu Zhang, Zhuang Guo, Wenwei Lu, Bo Yang, Feng-Wei Tian, Xiao-Ming Liu, Hao Zhang, Wei Chen
Traditional paocai brine (PB), which is continuously propagated by back-slopping and contains various species of lactic acid bacteria (LAB), is critical for the flavor of paocai. Culture-independent approaches are commonly used to investigate the microbial communities of fermented food. To evaluate the influence of different DNA (DNA) extraction methods on estimates of bacterial community profiles from 4 PBs, the lysis efficiency, DNA yield, purity and denaturing gradient gel electrophoresis (DGGE) profiles of V3 region of a 16S ribosomal ribonucleic acid gene were acquired...
September 3, 2017: Bioengineered
https://www.readbyqxmd.com/read/28399696/molecular-strategies-to-increase-the-levels-of-heterologous-transcripts-in-komagataella-phaffii-for-protein-production
#17
REVIEW
Luiza Cesca Piva, Maritza Ocampo Bentacur, Viviane Castelo Branco Reis, Janice Lisboa De Marco, Lidia Maria Pepe de Moraes, Fernando Araripe Gonçalves Torres
Komagataella phaffii (formerly Pichia pastoris) is a well-known fungal system for heterologous protein production in the context of modern biotechnology. To obtain higher protein titers in this system many researchers have sought to optimize gene expression by increasing the levels of transcription of the heterologous gene. This has been typically achieved by manipulating promoter sequences or by generating clones bearing multiple copies of the desired gene. The aim of this work is to describe how these different molecular strategies have been applied in K...
September 3, 2017: Bioengineered
https://www.readbyqxmd.com/read/28394734/optimization-of-bioengineered-heparin-heparan-sulfate-production-for-therapeutic-applications
#18
Megan S Lord, MoonSun Jung, John M Whitelock
Heparin has been used clinically as an anti-coagulant for more than 100 y and the major source of this therapeutic is still animal tissues. Contamination issues in some batches of heparin over 10 y ago have highlighted the need to develop alternative methods of production of this essential drug. (1) Bioengineering heparin by expressing serglycin in mammalian cells is a promising approach that was recently reported by the authors. (2) This addendum explores the approaches that the authors are taking to increase the yield of recombinantly expressed serglycin decorated with heparin/heparan sulfate focusing on cell culture and bioreactor conditions and proposes that the cell microenvironment is a key modulator of heparin biosynthesis...
September 3, 2017: Bioengineered
https://www.readbyqxmd.com/read/28394725/repeated-batch-fermentation-of-immobilized-e-coli-expressing-vitreoscilla-hemoglobin-for-long-term-use
#19
Taner Sar, Gamze Seker, Ayse Gokce Erman, Benjamin C Stark, Meltem Yesilcimen Akbas
This study describes an efficient and reusable process for ethanol production from medium containing whey powder, using alginate immobilized ethanologenic E. coli strains either expressing (TS3) or not expressing (FBR5) Vitreoscilla hemoglobin. Reuseabilities of the FBR5 and TS3 strains were investigated regarding their ethanol production capacities over the course of 15 successive 96-h batch fermentations. The ethanol production was fairly stable over the entire duration of the experiment, with strain TS3 maintaining a substantial advantage over strain FBR5...
September 3, 2017: Bioengineered
https://www.readbyqxmd.com/read/28282268/construction-of-recombinant-yarrowia-lipolytica-and-its-application-in-bio-transformation-of-lignocellulose
#20
Hui-Ting Song, Yi-Min Yang, Ding-Kang Liu, Xiao-Qing Xu, Wen-Jing Xiao, Zi-Lu Liu, Wu-Cheng Xia, Chao-Ying Wang, Xiao Yu, Zheng-Bing Jiang
Lignocellulose is a polysaccharide and an abundant biomass resource that widely exists in grains, beans, rice, and their by-products. Over 10 million tons of lignocellulose resources and processing products are produced every year in China. Three recombinant Y. lipolytica strains with cellulase (β-glucosidase, endoglucanase and cellobiohydrolase) were constructed. The enzymatic activities of these enzymes were 14.181 U/mL, 16.307 U/mL, and 17.391 U/mL, respectively. The whole cell cellulases were used for a stover bio-transformation...
September 3, 2017: Bioengineered
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