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BMC Biotechnology

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https://www.readbyqxmd.com/read/28810845/a-bioinformatics-approach-for-identifying-transgene-insertion-sites-using-whole-genome-sequencing-data
#1
Doori Park, Su-Hyun Park, Yong Wook Ban, Youn Shic Kim, Kyoung-Cheul Park, Nam-Soo Kim, Ju-Kon Kim, Ik-Young Choi
BACKGROUND: Genetically modified crops (GM crops) have been developed to improve the agricultural traits of modern crop cultivars. Safety assessments of GM crops are of paramount importance in research at developmental stages and before releasing transgenic plants into the marketplace. Sequencing technology is developing rapidly, with higher output and labor efficiencies, and will eventually replace existing methods for the molecular characterization of genetically modified organisms...
August 15, 2017: BMC Biotechnology
https://www.readbyqxmd.com/read/28789688/an-in-vitro-synthetic-biosystem-based-on-acetate-for-production-of-phloroglucinol
#2
Rubing Zhang, Wei Liu, Yujin Cao, Xin Xu, Mo Xian, Huizhou Liu
BACKGROUND: Phloroglucinol is an important chemical, and the biosynthesis processes which can convert glucose to phloroglucinol have been established. However, due to approximate 80% of the glucose being transformed into undesirable by-products and biomass, this biosynthesis process only shows a low yield with the highest value of about 0.20 g/g. The industrial applications are usually hindered by the low current productivity and yield and also by the high costs. Generally, several different aspects limit the development of phloroglucinol biosynthesis...
August 8, 2017: BMC Biotechnology
https://www.readbyqxmd.com/read/28778182/immobilisation-of-delta-like-1-ligand-for-the-scalable-and-controlled-manufacture-of-hematopoietic-progenitor-cells-in-a-stirred-bioreactor
#3
Rebecca L L Moore, Matthew J Worrallo, Peter D Mitchell, Jon Harriman, Katie E Glen, Robert J Thomas
BACKGROUND: Umbilical cord blood provides a source of hematopoietic stem cells for transplantation with immunological and availability advantages over conventional bone marrow sources. Limited cell numbers and slower engraftment from umbilical cord blood units has led to the clinical development of immobilised Notch ligand Delta-Like 1 to promote ex vivo expansion of a rapidly engrafting cell population. However, current immobilisation methods are not simple to scale in a controlled manner...
August 4, 2017: BMC Biotechnology
https://www.readbyqxmd.com/read/28768539/comprehensive-in-silico-allergenicity-assessment-of-novel-protein-engineered-chimeric-cry-proteins-for-safe-deployment-in-crops
#4
Maniraj Rathinam, Shweta Singh, Debasis Pattanayak, Rohini Sreevathsa
BACKGROUND: Development of chimeric Cry toxins by protein engineering of known and validated proteins is imperative for enhancing the efficacy and broadening the insecticidal spectrum of these genes. Expression of novel Cry proteins in food crops has however created apprehensions with respect to the safety aspects. To clarify this, premarket evaluation consisting of an array of analyses to evaluate the unintended effects is a prerequisite to provide safety assurance to the consumers. Additionally, series of bioinformatic tools as in silico aids are being used to evaluate the likely allergenic reaction of the proteins based on sequence and epitope similarity with known allergens...
August 2, 2017: BMC Biotechnology
https://www.readbyqxmd.com/read/28764759/effect-of-acetic-acid-on-ethanol-production-by-zymomonas-mobilis-mutant-strains-through-continuous-adaptation
#5
Yu-Fan Liu, Chia-Wen Hsieh, Yao-Sheng Chang, Being-Sun Wung
BACKGROUND: Acetic acid is a predominant by-product of lignocellulosic biofuel process, which inhibits microbial biocatalysts. Development of bacterial strains that are tolerant to acetic acid is challenging due to poor understanding of the underlying molecular mechanisms. RESULTS: In this study, we generated and characterized two acetic acid-tolerant strains of Zymomonas mobilis using N-methyl-N'-nitro-N-nitrosoguanidine (NTG)-acetate adaptive breeding. Two mutants, ZMA-142 and ZMA-167, were obtained, showing a significant growth rate at a concentration of 244 mM sodium acetate, while the growth of Z...
August 1, 2017: BMC Biotechnology
https://www.readbyqxmd.com/read/28705159/an-att-site-based-recombination-reporter-system-for-genome-engineering-and-synthetic-dna-assembly
#6
Michael J Bland, Magaly Ducos-Galand, Marie-Eve Val, Didier Mazel
BACKGROUND: Direct manipulation of the genome is a widespread technique for genetic studies and synthetic biology applications. The tyrosine and serine site-specific recombination systems of bacteriophages HK022 and ΦC31 are widely used for stable directional exchange and relocation of DNA sequences, making them valuable tools in these contexts. We have developed site-specific recombination tools that allow the direct selection of recombination events by embedding the attB site from each system within the β-lactamase resistance coding sequence (bla)...
July 14, 2017: BMC Biotechnology
https://www.readbyqxmd.com/read/28693542/overview-of-methodologies-for-t-cell-receptor-repertoire-analysis
#7
Elisa Rosati, C Marie Dowds, Evaggelia Liaskou, Eva Kristine Klemsdal Henriksen, Tom H Karlsen, Andre Franke
BACKGROUND: The T-cell receptor (TCR), located on the surface of T cells, is responsible for the recognition of the antigen-major histocompatibility complex, leading to the initiation of an inflammatory response. Analysing the TCR repertoire may help to gain a better understanding of the immune system features and of the aetiology and progression of diseases, in particular those with unknown antigenic triggers. The extreme diversity of the TCR repertoire represents a major analytical challenge; this has led to the development of specialized methods which aim to characterize the TCR repertoire in-depth...
July 10, 2017: BMC Biotechnology
https://www.readbyqxmd.com/read/28676112/unusual-acylation-of-chloramphenicol-in-lysobacter-enzymogenes-a-biocontrol-agent-with-intrinsic-resistance-to-multiple-antibiotics
#8
Wei Zhang, Justin Huffman, Shengying Li, Yuemao Shen, Liangcheng Du
BACKGROUND: The environmental gliding bacteria Lysobacter are emerging as a new group of biocontrol agents due to their prolific production of lytic enzymes and potent antibiotic natural products. These bacteria are intrinsically resistant to many antibiotics, but the mechanisms behind the antibiotic resistance have not been investigated. RESULTS: Previously, we have used chloramphenicol acetyltransferase gene (cat) as a selection marker in genetic manipulation of natural product biosynthetic genes in Lysobacter, because chloramphenicol is one of the two common antibiotics that Lysobacter are susceptible to...
July 4, 2017: BMC Biotechnology
https://www.readbyqxmd.com/read/28676110/heterogeneous-oxygen-availability-affects-the-titer-and-topology-but-not-the-fidelity-of-plasmid-dna-produced-by-escherichia-coli
#9
Karim E Jaén, Juan-Carlos Sigala, Roberto Olivares-Hernández, Karsten Niehaus, Alvaro R Lara
BACKGROUND: Dissolved oxygen tension (DOT) is hardly constant and homogenously distributed in a bioreactor, which can have a negative impact in the metabolism and product synthesis. However, the effects of DOT on plasmid DNA (pDNA) production and quality have not been thoroughly investigated. In the present study, the effects of aerobic (DOT ≥30% air sat.), microaerobic (constant DOT = 3% air sat.) and oscillatory DOT (from 0 to 100% air sat.) conditions on pDNA production, quality and host performance were characterized...
July 4, 2017: BMC Biotechnology
https://www.readbyqxmd.com/read/28676059/potent-long-acting-rhfgf21-analog-for-treatment-of-diabetic-nephropathy-in-db-db-and-dio-mice
#10
Longwei Zhao, Huiyan Wang, Junjun Xie, Zilu Chen, Xiaokun Li, Jianlou Niu
BACKGROUND: Fibroblast growth factor 21 (FGF21) is an endocrine-acting hormone that has the potential to treat diabetic nephropathy. However, development of FGF21 into a therapeutic has been hindered due to its low intrinsic bio-stability. In our previous study, we have developed a recombinant human FGF21 (rhFGF21) variant by site-directed mutagenesis and solid-phase PEGylation, which retained its biological function. The aim of this study is to elucidate whether the therapeutic effect of PEGylated rhFGF21 (PEG-rhFGF21) on diabetic nephropathy in DIO (diet induced obesity) mice is more significant than rhFGF21 in vivo...
July 4, 2017: BMC Biotechnology
https://www.readbyqxmd.com/read/28673349/site-specific-chemical-conjugation-of-human-fas-ligand-extracellular-domain-using-trans-cyclooctene-methyltetrazine-reactions
#11
Michiro Muraki, Kiyonori Hirota
BACKGROUND: Fas ligand plays a key role in the human immune system as a major cell death inducing protein. The extracellular domain of human Fas ligand (hFasLECD) triggers apoptosis of malignant cells, and therefore is expected to have substantial potentials in medical biotechnology. However, the current application of this protein to clinical medicine is hampered by a shortage of the benefits relative to the drawbacks including the side-effects in systemic administration. Effective procedures for the engineering of the protein by attaching useful additional functions are required to overcome the problem...
July 3, 2017: BMC Biotechnology
https://www.readbyqxmd.com/read/28673305/oligomerization-triggered-by-foldon-a-simple-method-to-enhance-the-catalytic-efficiency-of-lichenase-and-xylanase
#12
Xinzhe Wang, Huihua Ge, Dandan Zhang, Shuyu Wu, Guangya Zhang
BACKGROUND: Effective and simple methods that lead to higher enzymatic efficiencies are highly sough. Here we proposed a foldon-triggered trimerization of the target enzymes with significantly improved catalytic performances by fusing a foldon domain at the C-terminus of the enzymes via elastin-like polypeptides (ELPs). The foldon domain comprises 27 residues and can forms trimers with high stability. RESULTS: Lichenase and xylanase can hydrolyze lichenan and xylan to produce value added products and biofuels, and they have great potentials as biotechnological tools in various industrial applications...
July 3, 2017: BMC Biotechnology
https://www.readbyqxmd.com/read/28633643/enhancement-of-thermoalkaliphilic-xylanase-production-by-pichia-pastoris-through-novel-fed-batch-strategy-in-high-cell-density-fermentation
#13
Tingting Shang, Dayong Si, Dongyan Zhang, Xuhui Liu, Longmei Zhao, Cong Hu, Yu Fu, Rijun Zhang
BACKGROUND: Xylanase degrades xylan into monomers of various sizes by catalyzing the endohydrolysis of the 1,4-β-D-xylosidic linkage randomly, possessing potential in wide industrial applications. Most of xylanases are susceptible to be inactive when suffering high temperature and high alkaline process. Therefore, it is necessary to develop a high amount of effective thermoalkaliphilic xylanases. This study aims to enhance thermoalkaliphilic xylanase production in Pichia pastoris through fermentation parameters optimization and novel efficient fed-batch strategy in high cell-density fermentation...
June 21, 2017: BMC Biotechnology
https://www.readbyqxmd.com/read/28637431/continuous-long-term-cytotoxicity-monitoring-in-3d-spheroids-of-beetle-luciferase-expressing-hepatocytes-by-nondestructive-bioluminescence-measurement
#14
Mayu Yasunaga, Yasuko Fujita, Rumiko Saito, Mitsuo Oshimura, Yoshihiro Nakajima
BACKGROUND: Three-dimensional (3D) spheroids are frequently used in toxicological study because their morphology and function closely resemble those of tissue. As these properties are maintained over a long term, repeated treatment of the spheroids with a test object is possible. Generally, in the repeated treatment test to assess cytotoxicity in the spheroids, ATP assay, colorimetric measurement using pigments or high-content imaging analysis is performed. However, continuous assessment of cytotoxicity in the same spheroids using the above assays or analysis is impossible because the spheroids must be disrupted or killed...
June 20, 2017: BMC Biotechnology
https://www.readbyqxmd.com/read/28629346/a-hyper-thermostable-%C3%AE-amylase-from-pyrococcus-furiosus-accumulates-in-nicotiana-tabacum-as-functional-aggregates
#15
Hong Zhu, L Bruce Reynolds, Rima Menassa
BACKGROUND: Alpha amylase hydrolyzes α-bonds of polysaccharides such as starch and produces malto-oligosaccharides. Its starch saccharification applications make it an essential enzyme in the textile, food and brewing industries. Commercially available α-amylase is mostly produced from Bacillus or Aspergillus. A hyper-thermostable and Ca (2++) independent α-amylase from Pyrococcus furiosus (PFA) expressed in E.coli forms insoluble inclusion bodies and thus is not feasible for industrial applications...
June 19, 2017: BMC Biotechnology
https://www.readbyqxmd.com/read/28606082/expression-and-functional-analyses-of-a-kinesin-gene-ghkis13a1-from-cotton-gossypium-hirsutum-fiber
#16
Yan-Jun Li, Shou-Hong Zhu, Xin-Yu Zhang, Yong-Chang Liu, Fei Xue, Lan-Jie Zhao, Jie Sun
BACKGROUND: Cotton fiber, a natural fiber widely used in the textile industry, is differentiated from single cell of ovule epidermis. A large number of genes are believed to be involved in fiber formation, but so far only a few fiber genes have been isolated and functionally characterized in this developmental process. The Kinesin13 subfamily was found to play key roles during cell division and cell elongation, and was considered to be involved in the regulation of cotton fiber development...
June 12, 2017: BMC Biotechnology
https://www.readbyqxmd.com/read/28606077/evaluation-of-gaussia-luciferase-and-foot-and-mouth-disease-virus-2a-translational-interrupter-chimeras-as-polycistronic-reporters-for-transgene-expression
#17
Michael Puckette, Thomas Burrage, John G Neilan, Max Rasmussen
BACKGROUND: The Gaussia princeps luciferase is used as a stand-alone reporter of transgene expression for in vitro and in vivo expression systems due to the rapid and easy monitoring of luciferase activity. We sought to simultaneously quantitate production of other recombinant proteins by transcriptionally linking the Gaussia princeps luciferase gene to other genes of interest through the foot-and-mouth disease virus 2A translational interrupter sequence. RESULTS: We produced six plasmids, each encoding a single open reading frame, with the foot-and-mouth disease virus 2A sequence placed either N-terminal or C-terminal to the Gaussia princeps luciferase gene...
June 12, 2017: BMC Biotechnology
https://www.readbyqxmd.com/read/28606076/flocculating-performance-of-a-bioflocculant-produced-by-arthrobacter-humicola-in-sewage-waste-water-treatment
#18
Mayowa Oladele Agunbiade, Esta Van Heerden, Carolina H Pohl, Anofi Tom Ashafa
BACKGROUND: The discharge of poorly treated effluents into the environment has far reaching, consequential impacts on human and aquatic life forms. Thus, we evaluated the flocculating efficiency of our test bioflocculant and we report for the first time the ability of the biopolymeric flocculant produced by Arthrobacter humicola in the treatment of sewage wastewater. This strain was isolated from sediment soil sample at Sterkfontein dam in the Eastern Free State province of South Africa...
June 12, 2017: BMC Biotechnology
https://www.readbyqxmd.com/read/28587679/somatic-cell-selection-for-chlorsulfuron-resistant-mutants-in-potato-identification-of-point-mutations-in-the-acetohydroxyacid-synthase-gene
#19
Philippa J Barrell, Julie M Latimer, Samantha J Baldwin, Michelle L Thompson, Jeanne M E Jacobs, Anthony J Conner
BACKGROUND: Somatic cell selection in plants allows the recovery of spontaneous mutants from cell cultures. When coupled with the regeneration of plants it allows an effective approach for the recovery of novel traits in plants. This study undertook somatic cell selection in the potato (Solanum tuberosum L.) cultivar 'Iwa' using the sulfonylurea herbicide, chlorsulfuron, as a positive selection agent. RESULTS: Following 5 days' exposure of potato cell suspension cultures to 20 μg/l chlorsulfuron, rescue selection recovered rare potato cell colonies at a frequency of approximately one event in 2...
June 6, 2017: BMC Biotechnology
https://www.readbyqxmd.com/read/28577554/fermentation-of-lactose-to-ethanol-in-cheese-whey-permeate-and-concentrated-permeate-by-engineered-escherichia-coli
#20
Lorenzo Pasotti, Susanna Zucca, Michela Casanova, Giuseppina Micoli, Maria Gabriella Cusella De Angelis, Paolo Magni
BACKGROUND: Whey permeate is a lactose-rich effluent remaining after protein extraction from milk-resulting cheese whey, an abundant dairy waste. The lactose to ethanol fermentation can complete whey valorization chain by decreasing dairy waste polluting potential, due to its nutritional load, and producing a biofuel from renewable source at the same time. Wild type and engineered microorganisms have been proposed as fermentation biocatalysts. However, they present different drawbacks (e...
June 2, 2017: BMC Biotechnology
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