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Journal of Bioscience and Bioengineering

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https://www.readbyqxmd.com/read/28209498/genome-wide-screening-of-transcription-factor-deletion-targets-in-escherichia-coli-for-enhanced-production-of-lactate-based-polyesters
#1
Ryosuke Kadoya, Yu Kodama, Ken'ichiro Matsumoto, Toshihiko Ooi, Seiichi Taguchi
Engineered Escherichia coli is a useful platform for production of lactate (LA)-based polyester poly[LA-co-3-hydroxybutyrate (3HB)] from renewable sugars. Here we screened all non-lethal transcription factor deletions of E. coli for efficient production of the polymer. This approach aimed at drawing out the latent potential of the host for efficient polymer production via indirect positive effects. Among 252 mutants from Keio Collection tested, eight mutants (ΔpdhR, ΔcspG, ΔyneJ, ΔchbR, ΔyiaU, ΔcreB, ΔygfI and ΔnanK) accumulated greater amount of polymer (6...
February 13, 2017: Journal of Bioscience and Bioengineering
https://www.readbyqxmd.com/read/28202308/nanaomycin-h-a-new-nanaomycin-analog
#2
Takuji Nakashima, Toru Kimura, Rei Miyano, Hirotaka Matsuo, Tomoyasu Hirose, Aoi Kimishima, Kenichi Nonaka, Masato Iwatsuki, Jun Nakanishi, Yōko Takahashi, Satoshi Ōmura
Physicochemical screening identified a new nanaomycin analog, nanaomycin H, which was isolated from a culture broth of Streptomyces rosa subsp. notoensis OS-3966. This microorganism is already known to produce seven nanaomycin compounds, (nanaomycin A to G). Structural elucidation of nanaomycin H showed it to be a pyranonaphthoquinone with a mycothiol moiety. A N-acetylcysteine S-conjugate of nanaomycin H, without α-glucosamine linked to myo-inositol moiety, mercapturic acid derivative, was also detected in the same culture broth...
February 12, 2017: Journal of Bioscience and Bioengineering
https://www.readbyqxmd.com/read/28202307/influence-of-rice-straw-polyphenols-on-cellulase-production-by-trichoderma-reesei
#3
Wei Zheng, Qin Zheng, Yiyun Xue, Jiajun Hu, Min-Tian Gao
In this study, we found that during cellulase production by Trichoderma reesei large amounts of polyphenols were released from rice straw when the latter was used as the carbon source. We identified and quantified the phenolic compounds in rice straw and investigated the effects of the phenolic compounds on cellulase production by T. reesei. The phenolic compounds of rice straw mainly consisted of phenolic acids and tannins. Coumaric acid (CA) and ferulic acid (FA) were the predominant phenolic acids, which inhibited cellulase production by T...
February 12, 2017: Journal of Bioscience and Bioengineering
https://www.readbyqxmd.com/read/28202306/nitrite-oxidation-kinetics-of-two-nitrospira-strains-the-quest-for-competition-and-ecological-niche-differentiation
#4
Norisuke Ushiki, Masaru Jinno, Hirotsugu Fujitani, Toshikazu Suenaga, Akihiko Terada, Satoshi Tsuneda
Nitrite oxidation is an aerobic process of the nitrogen cycle in natural ecosystems, and is performed by nitrite-oxidizing bacteria (NOB). Also, nitrite oxidation is a rate-limiting step of nitrogen removal in wastewater treatment plants (WWTPs). Although Nitrospira is known as dominant NOB in WWTPs, information on their physiological properties and kinetic parameters is limited. Here, we report the kinetic parameters and inhibition of nitrite oxidation by free ammonia in pure cultures of Nitrospira sp. strain ND1 and Nitrospira japonica strain NJ1, which were previously isolated from activated sludge in a WWTP...
February 12, 2017: Journal of Bioscience and Bioengineering
https://www.readbyqxmd.com/read/28202305/enzymatic-synthesis-of-2-o-methylribonucleosides-with-a-nucleoside-hydrolase-family-enzyme-from-lactobacillus-buchneri-lbk78
#5
Yuuki Mitsukawa, Makoto Hibi, Narihiro Matsutani, Nobuyuki Horinouchi, Satomi Takahashi, Jun Ogawa
2'-O-Methylribonucleosides (2'-OMe-NRs) are promising raw materials for the production of nucleic acid drugs. We previously reported that LbNH, a nucleoside hydrolase from Lactobacillus buchneri LBK78 (NITE P-01581), was the first enzyme found to act on 2'-OMe-NRs. In the present study, we determined that LbNH also has the transribosylation activity between 2'-OMe-NRs and nucleobases, in addition to the hydrolyzing activity towards 2'-OMe-NRs. When 2'-O-methyluridine (2'-OMe-UR) and adenine were reacted with LbNH, 2'-O-methyladenosine (2'-OMe-AR) was produced...
February 12, 2017: Journal of Bioscience and Bioengineering
https://www.readbyqxmd.com/read/28190739/detection-of-antibodies-against-hepatitis-b-virus-surface-antigen-and-hepatitis-c-virus-core-antigen-in-plasma-with-a-waveguide-mode-sensor
#6
Takenori Shimizu, Torahiko Tanaka, Shigeyuki Uno, Hiroki Ashiba, Makoto Fujimaki, Mutsuo Tanaka, Koichi Awazu, Makoto Makishima
In large-scale disasters, such as huge significant earthquakes, on-site examination for blood typing and infectious disease screening will be very helpful to save lives of victims who need surgical treatment and/or blood transfusion. However, physical damage, such as building collapse, electric power failure and traffic blockage, disrupts the capacity of the medical system. Portable diagnostic devices are useful in such cases of emergency. In this study, we evaluated a waveguide-mode sensor for detection of anti-hepatitis virus antibodies...
February 9, 2017: Journal of Bioscience and Bioengineering
https://www.readbyqxmd.com/read/28189491/image-based-cell-quality-evaluation-to-detect-irregularities-under-same-culture-process-of-human-induced-pluripotent-stem-cells
#7
Risako Nagasaka, Yuto Gotou, Kei Yoshida, Kei Kanie, Kazunori Shimizu, Hiroyuki Honda, Ryuji Kato
To meet the growing demand for human induced pluripotent stem cells (iPSCs) for various applications, technologies that enable the manufacturing of iPSCs on a large scale should be developed. There are several technological challenges in iPSC manufacturing technology. Image-based cell quality evaluation technology for monitoring iPSC quality in culture enables the manufacture of intact cells for further applications. Although several studies have reported the effectiveness of image-based evaluation of iPSCs, it remains challenging to detect irregularities that may arise using the same processing operations during quality evaluation of automated processing...
February 8, 2017: Journal of Bioscience and Bioengineering
https://www.readbyqxmd.com/read/28185833/corrigendum-to-experimental-evolution-and-gene-knockout-studies-reveal-acra-mediated-isobutanol-tolerance-in-ralstonia-eutropha-j-biosci-bioeng-122-2016-64-69
#8
Amanda C Bernardi, Claudia S Gai, Jingnan Lu, Anthony J Sinskey, Christopher J Brigham
No abstract text is available yet for this article.
February 6, 2017: Journal of Bioscience and Bioengineering
https://www.readbyqxmd.com/read/28185832/reduction-of-fr900525-using-an-s-2-aminoethyl-l-cysteine-resistant-mutant
#9
Shiho Shimizu, Ayako Futase, Tatsuya Yokoyama, Satoshi Ueda, Hiroyuki Honda
FK506 (tacrolimus), a macrolide compound with immunosuppressant activity, has been proven to have clinical importance and has been manufactured industrially since 1993 by using mutants with high FK506-production ability; these mutants have been developed from the wild strain Streptomyces tsukubaensis No. 9993. FR900525 is one of the by-products of FK506 production. However, there was no effective industrial method to separate FR900525 from FK506 due to the structural similarity between the two compounds. Therefore, reducing the level of FR900525 was a serious problem in the industrial strain A...
February 6, 2017: Journal of Bioscience and Bioengineering
https://www.readbyqxmd.com/read/28143676/pretreatment-of-lignocellulosic-biomass-by-cattle-rumen-fluid-for-methane-production-bacterial-flora-and-enzyme-activity-analysis
#10
Yasunori Baba, Yu Matsuki, Yumi Mori, Yoshihisa Suyama, Chika Tada, Yasuhiro Fukuda, Masanori Saito, Yutaka Nakai
We attempted to develop a pretreatment method for methane fermentation of lignocellulosic biomass using cattle rumen fluid, treated as slaughterhouse waste. When rapeseed (Brassica napus L.) was added to the methane fermentation after being solubilized with rumen fluid, 1.5 times more methane was produced compared with untreated rapeseed. Analysis of the bacterial flora during rumen fluid treatment using the MiSeq next-generation sequencer showed that the predominant phylum shifted from Bacteroidetes, composed of amylolytic Prevotella spp...
January 29, 2017: Journal of Bioscience and Bioengineering
https://www.readbyqxmd.com/read/28139350/overexpression-of-endogenous-1-deoxy-d-xylulose-5-phosphate-synthase-dxs-in-cyanobacterium-synechocystis-sp-pcc6803-accelerates-protein-aggregation
#11
Kai Kudoh, Shingo Hotta, Midori Sekine, Rintaro Fujii, Arisu Uchida, Genma Kubota, Yusuke Kawano, Masaki Ihara
1-Deoxy-d-xylulose 5-phosphate synthase (DXS) is a rate-limiting enzyme in the 2-C-methyl-d-erythritol 4-phosphate (MEP) pathway, which is responsible for the production of precursors of all isoprenoids. In a previous study, we had examined the overexpression of an endogenous DXS in a Synechocystis sp. PCC6803 mutant (DXS_ox), and found that the dxs mRNA level was 4-fold higher than that in the wild-type (WT) strain. However, the DXS protein level was only 1.5-fold higher, leading to the assumption that the level might be regulated by post-transcriptional events...
January 27, 2017: Journal of Bioscience and Bioengineering
https://www.readbyqxmd.com/read/28131540/fabrication-of-a-fiber-type-hepatic-tissue-by-bottom-up-method-using-multilayer-spheroids
#12
Tatsuya Okudaira, Ryohei Yabuta, Hiroshi Mizumoto, Toshihisa Kajiwara
Liver regenerative medicine, a therapy using cultured hepatocytes or hepatic tissues, has the potential to replace liver transplantation. However, this therapeutic strategy has challenges to overcome, including in construction of the hepatic tissues. As an approach to fabricating functional 3D hepatic tissues, we focused on hepatocyte spheroids, which have high cell density and maintain high liver-specific functions. We employed a bottom-up method using spheroids, arranging hepatocytes and endothelial cells regularly at the time of tissue construction...
January 25, 2017: Journal of Bioscience and Bioengineering
https://www.readbyqxmd.com/read/28131539/acetylation-and-deacetylation-for-sucralose-preparation-by-a-newly-isolated-bacillus-amyloliquefaciens-wzs01
#13
Jie Sun, Liang Chen, Bo Lou, Yanbing Bai, Xinjun Yu, Man Zhao, Zhao Wang
Sucralose is a non-nutritive artificial sweetener used in a broad range of foods and beverages. In the present study, Bacillus amyloliquefaciens WZS01 was isolated, identified, and used as a catalyst both in regioselective acylation and deacetylation for sucralose preparation. Bacterial cells were immobilized on polyurethane foam and utilized to synthesize sucrose-6-acetate regioselectively. The yield of sucrose-6-acetate was >95% with 60 mM sucrose after 22 h of reaction. Free cells could hydrolyze 75 mM sucralose-6-acetate to produce sucralose with >99% yield after 24 h of reaction...
January 25, 2017: Journal of Bioscience and Bioengineering
https://www.readbyqxmd.com/read/28129983/identification-and-characterization-of-a-novel-n-acyl-homoserine-lactonase-gene-in-sphingomonas-ursincola-isolated-from-industrial-cooling-water-systems
#14
Tomohiro Morohoshi, Niina Sato, Taro Iizumi, Airi Tanaka, Tsukasa Ikeda
Biofilm formation by bacteria is one of the main causes of fouling in industrial cooling water systems. In many gram-negative bacteria, biofilm formation is regulated by N-acyl-homoserine lactone (AHL)-mediated quorum sensing. In this study, we isolated three AHL-degrading bacteria from cooling water systems and identified them as Sphingomonas ursincola. The draft genome sequence of S. ursincola A1 revealed the presence of an AHL-degrading gene homolog, designated qsdS. The qsdS region was also amplified by PCR from the genomes of the other two S...
January 24, 2017: Journal of Bioscience and Bioengineering
https://www.readbyqxmd.com/read/28126230/analysis-of-metabolisms-and-transports-of-xylitol-using-xylose-and-xylitol-assimilating-saccharomyces-cerevisiae
#15
Tatsunori Tani, Hisataka Taguchi, Takashi Akamatsu
To clarify the relationship between NAD(P)(+)/NAD(P)H redox balances and the metabolisms of xylose or xylitol as carbon sources, we analyzed aerobic and anaerobic batch cultures of recombinant Saccharomyces cerevisiae in a complex medium containing 20 g/L xylose or 20 g/L xylitol at pH 5.0 and 30°C. The TDH3p-GAL2 or gal80Δ strain completely consumed the xylose within 24 h and aerobically consumed 92-100% of the xylitol within 96 h, but anaerobically consumed only 20% of the xylitol within 96 h. Cells of both strains grew well in aerobic culture...
January 23, 2017: Journal of Bioscience and Bioengineering
https://www.readbyqxmd.com/read/28110958/enhanced-in-cell-folding-of-reversibly-cationized-transcription-factor-using-amphipathic-peptide
#16
Midori Futami, Tomoki Nakano, Mayu Yasunaga, Masahiro Makihara, Takashi Asama, Yoshihisa Hagihara, Yoshihiro Nakajima, Junichiro Futami
The intracellular delivery of functionally active transcription factor proteins is emerging as a promising technique for artificial regulation of cellular functions. However, in addition to the cell membrane, which acts as a barrier to macromolecules, the aggregation-favored properties of structurally flexible transcription factor proteins limit the application of this method. In-cell folding technique can be used to overcome these issues. This technique solubilizes denatured protein by reversible alkyl-disulfide cationization (S-cationization), and simultaneously endows efficient intracellular delivery and folding to the biologically active conformation in the reducing environment of the cytosol...
January 16, 2017: Journal of Bioscience and Bioengineering
https://www.readbyqxmd.com/read/28094103/characterization-of-particulate-matter-binding-peptides-screened-from-phage-display
#17
Aw Wei Liang Alvin, Masayoshi Tanaka, Mina Okochi
Particulate matter (PM), especially particulates with diameters of less than 2.5 μm, can penetrate the alveolar region and increase the risk of respiratory diseases. This has stimulated research efforts to develop detection methods so that counter measures can be taken. In this study, four PM binding peptides were obtained by phage display and binding characteristics of these peptides were investigated using the peptide array. The strongest binding peptide, WQDFGAVRSTRS, displayed a binding property, measured in terms of spot intensity, 11...
January 13, 2017: Journal of Bioscience and Bioengineering
https://www.readbyqxmd.com/read/28089580/medium-optimization-based-on-yeast-s-elemental-composition-for-glutathione-production-in-saccharomyces-cerevisiae
#18
Maximilian Schmacht, Eric Lorenz, Ulf Stahl, Martin Senz
The production of glutathione (GSH) or GSH enriched yeast is still in the focus of research driven by a high industrial interest. In this study, an optimal growth rate for GSH production via Saccharomyces cerevisiae Sa-07346 was investigated. To further improve the fermentation process in a way that it is independent of lots, the influence of different WMIX medium compositions on biomass and GSH production was studied. Thereby, the fermentation medium was adjusted based on yeast's elemental composition. The resulting chemically defined fermentation medium led to high cell densities in fed-batches...
January 12, 2017: Journal of Bioscience and Bioengineering
https://www.readbyqxmd.com/read/28089379/characterization-of-a-novel-dyp-type-peroxidase-from-streptomyces-avermitilis
#19
Kanako Sugawara, Yuriko Nishihashi, Tomomi Narioka, Toru Yoshida, Mifumi Morita, Yasushi Sugano
DyP-type peroxidases are a heme peroxidase family with unique properties whose members are widely distributed from prokaryotes to eukaryotes. DyP-type peroxidases are subdivided into class P, I and V based on structure-based sequence alignment. Class V enzymes possess degradation activities for anthraquinone dyes, and include extra sequences compared with class P and I. Class V enzymes are mainly found in fungi, with only two such proteins, AnaPX and DyP2, reported in bacteria. Here, we heterologously expressed, purified and biochemically characterized SaDyP2 protein, predicted to belong to class V...
January 11, 2017: Journal of Bioscience and Bioengineering
https://www.readbyqxmd.com/read/28089378/butyrate-production-under-aerobic-growth-conditions-by-engineered-escherichia-coli
#20
Naoya Kataoka, Alisa S Vangnai, Thunyarat Pongtharangkul, Toshiharu Yakushi, Kazunobu Matsushita
Butyrate is an important industrial platform chemical. Although several groups have reported butyrate production under oxygen-limited conditions by a native producer, Clostridium tyrobutylicum, and by a metabolically engineered Escherichia coli, efforts to produce butyrate under aerobic growth conditions have met limited success. Here, we constructed a novel butyrate synthetic pathway that functions under aerobic growth conditions in E. coli, by modifying the 1-butanol synthetic pathway reported previously...
January 11, 2017: Journal of Bioscience and Bioengineering
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