样式: 排序: IF: - GO 导出 标记为已读
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Gene identification and enzymatic characterization of the initial enzyme in pyrimidine oxidative metabolism, uracil-thymine dehydrogenase J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-03-13 Chee-Leong Soong, Kengo Deguchi, Michiki Takeuchi, Syoko Kozono, Nobuyuki Horinouchi, Dayong Si, Makoto Hibi, Sakayu Shimizu, Jun Ogawa
Uracil-thymine dehydrogenase (UTDH), which catalyzes the irreversible oxidation of uracil to barbituric acid in oxidative pyrimidine metabolism, was purified from JCM 3132. The finding of unusual stabilizing conditions (pH 11, in the presence of NADP or NADPH) enabled the enzyme purification. The purified enzyme was a heteromer consisting of three different subunits. The enzyme catalyzed oxidation
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Establishment of a novel cell line, CHO-MK, derived from Chinese hamster ovary tissues for biologics manufacturing J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-03-12 Kenji Masuda, Michi Kubota, Yuto Nakazawa, Chigusa Iwama, Kazuhiko Watanabe, Naoto Ishikawa, Yumiko Tanabe, Satoru Kono, Hiroki Tanemura, Shinichi Takahashi, Tomohiro Makino, Takeshi Okumura, Takayuki Horiuchi, Koichi Nonaka, Sei Murakami, Masamichi Kamihira, Takeshi Omasa
Chinese hamster ovary (CHO) cells are widely used as a host for producing recombinant therapeutic proteins due to advantages such as human-like post-translational modification, correct protein folding, higher productivity, and a proven track record in biopharmaceutical development. Much effort has been made to improve the process of recombinant protein production, in terms of its yield and productivity
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Prediction of antibody production performance change in Chinese hamster ovary cells using morphological profiling J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-03-11 Takumi Hisada, Yuta Imai, Yuto Takemoto, Kei Kanie, Ryuji Kato
Monoclonal antibodies (mAbs) represent a significant segment of biopharmaceuticals, with the market for mAb therapeutics expected to reach $200 billion in 2021. Chinese Hamster Ovary (CHO) cells are the industry standard for large-scale mAb production owing to their adaptability and genetic engineering capabilities. However, maintaining consistent product quality is challenging, primarily because of
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Effects of heterologous expression and N-glycosylation on the hyperthermostable endoglucanase of Pyrococcus furiosus J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-03-08 Hironori Semba, Haruka Kado Horiguchi, Hirokazu Tsuboi, Kazuhiko Ishikawa, Akio Koda
Hyperthermostable endoglucanases of glycoside hydrolase family 12 from the archaeon (EGPf) catalyze the hydrolysis of β-1,4-glucosidic linkages in cellulose and β-glucan structures that contain β-1,3- and β-1,4-mixed linkages. In this study, EGPf was heterologously expressed with and the recombinant enzyme was characterized. The successful expression of EGPf resulted as N-glycosylated protein in its
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Enhancing synthesis of ethyl lactate in rice baijiu fermentation by adding recovered granular cells J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-03-08 Shoujie Du, Liucui Yao, Bin Zhong, Junwei Qin, Songgui He, Youqiang Liu, Zhenqiang Wu
Ethyl lactate is the most abundant ester in semi-solid rice baijiu fermentation, affecting the flavor of baijiu to a great extent. The present study aimed to investigate the spatial distribution and formation contributor of ethyl lactate by removing the microorganisms and extracellular enzymes from the upper, middle, and lower fermentation broth during the later fermentation stage. The removal of suspended
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Heterologous production of a new lanthipeptide boletupeptin using a cryptic biosynthetic gene cluster of the myxobacterium Melittangium boletus J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-03-07 Pratchaya Rukthanapitak, Keita Saito, Ryo Kobayashi, Issara Kaweewan, Shinya Kodani
Myxobacteria have comparatively large genomes that contain many biosynthetic genes with the potential to produce secondary metabolites. Based on genome mining, we discovered a new biosynthetic gene cluster of class III lanthipeptide in the genome of the myxobacterium . The biosynthetic gene cluster contained a precursor peptide-coding gene , and a class III lanthipeptide synthetase-coding gene . The
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High cell density cultivation of Corynebacterium glutamicum by deep learning-assisted medium design and the subsequent feeding strategy J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-03-02 M, a, s, a, a, k, i, , K, o, n, i, s, h, i
To improve the cell productivity of , its initial specific growth rate was improved by medium improvement using deep neural network (DNN)-assisted design with Bayesian optimization (BO) and a genetic algorithm (GA). To obtain training data for the DNN, experimental design with an orthogonal array was set up using a chemically defined basal medium (GC XII). Based on the cultivation results for the training
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Identification of cheese rancidity-related lipases in Aspergillus oryzae AHU 7139 J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-03-01 Napaporn Chintagavongse, Haruto Kumura, Toru Hayakawa, Jun-ichi Wakamatsu, Koichi Tamano
The adjunct product with enzymatic activity from is beneficial for flavor enrichment in the ripened cheese. However, an excessive lipolytic reaction leads to the release of volatile free fatty acids. Accordingly, a strong off-flavor (i.e., rancidity) has been detected when AHU 7139 is used. To identify the rancidity-related lipase from this strain, we evaluated the substrate specificity and lipase
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Characteristic analysis and fermentation optimization of a novel Aureobasidium pullulans RM1603 with high pullulan yield J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-02-26 Jiale Chen, Ye Lu, Li Liu, Ruoxuan Bai, Shuting Zhang, Yaqiao Hao, Fangxu Xu, Buyun Wei, Hongxin Zhao
A high-yielding microbial polysaccharide-producing strain, named RM1603, was isolated from rhizosphere soil and identified by morphological and phylogenetic analysis. The extracellular polysaccharides (EPS) were identified by thin-layer chromatography and infrared spectroscopy. The fermentation conditions were optimized by single factor experiments in shake flasks and a 5-L fermentor. The results of
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Modulation of hepatic cellular tight junctions via coculture with cholangiocytes enables non-destructive bile recovery J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-02-26 Fumiya Tokito, Mikito Kiyofuji, Hyunjin Choi, Masaki Nishikawa, Toshiaki Takezawa, Yasuyuki Sakai
Estimation of the biliary clearance of drugs and their metabolites in humans is crucial for characterizing hepatobiliary disposition and potential drug-drug interactions. Sandwich-cultured hepatocytes, while useful for bile analysis, require cell destruction for bile recovery, limiting long-term or repeated dose drug effect evaluations. To overcome this limitation, we investigated the feasibility of
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Analysis of differences in microorganisms and aroma profiles between normal and off-flavor pit mud in Chinese strong-flavor Baijiu J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-02-17 Jinyang Li, Ze Ding, Wenqi Dong, Weiwei Li, Yanfang Wu, Lining Zhu, Huifeng Ma, Baoguo Sun, Xiuting Li
The unique cellar fermentation process of Chinese strong-flavor is the reason for its characteristic cellar aroma flavor. The types, abundance, community structure and metabolic activity of microorganisms in the pit mud directly affect the microbial balance in the white spirit production environment, promoting the formation of typical aromas and influencing the quality of CFSB. During the production
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Superior high-efficiency and high-throughput volatile flavor extraction of Japanese fermented seasonings by solvent-assisted stir bar solid extraction with reverse extraction J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-02-16 Yoko Iijima, Azusa Miwa, Kaito Shimada, Shunsuke Horita, Yuho Kamiko, Yusuke Ito, Kikuo Sasamoto, Takeharu Nakahara, Taichi Koizumi, Nobuo Ochiai
Fermented seasonings have pleasant flavors that stimulate our appetite. Their flavoring properties change depending on factors such as their materials and fermented conditions. Therefore, a comparative analysis of their flavor is important when evaluating their quality. However, seasonings contain high levels of various matrices such as sugars, proteins, lipids, and ethanol, making it difficult to
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Metabolic engineering with adaptive laboratory evolution for phenylalanine production by Corynebacterium glutamicum J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-02-15 Yukio Tachikawa, Miki Okuno, Takehiko Itoh, Takashi Hirasawa
The mutants resistant to a phenylalanine analog, 4-fluorophenylalanine (4FP), were obtained for metabolic engineering of for producing aromatic amino acids synthesized through the shikimate pathway by adaptive laboratory evolution. Culture experiments of the strains which carry the mutations found in the open reading frame from the 4FP-resistant mutants revealed that the mutations in the open reading
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Analysis of nitrogen source assimilation in industrial strains of Aspergillus oryzae J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-02-12 Shouhei Miki, Kanae Sakai, Takuro Nakagawa, Takumi Tanaka, Liyun Liu, Hideyuki Yamashita, Ken-Ichi Kusumoto
Nitrogen source assimilation is important for the biological functions of fungi, and its pathway has been deeply studied. mutants defective in nitrogen source assimilation are known to grow poorly on Czapek-Dox (CD) medium. In this study, we found an industrial strain of that grew very poorly on a CD medium containing sodium nitrate as a nitrogen source. We used media with various nitrogen components
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Rapid and cost-effective epitope mapping using PURE ribosome display coupled with next-generation sequencing and bioinformatics J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-02-10 Beixi Jia, Teruyo Ojima-Kato, Takaaki Kojima, Hideo Nakano
A novel, efficient and cost-effective approach for epitope identification of an antibody has been developed using a ribosome display platform. This platform, known as PURE ribosome display, utilizes an -based reconstituted cell-free protein synthesis system (PURE system). It stabilizes the mRNA-ribosome-peptide complex via a ribosome-arrest peptide sequence. This system was complemented by next-generation
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Discovery of long-chain polyamines embedded in the biosilica on the Bacillus cereus spore coat J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-02-10 Takeshi Ikeda, Yukihide Nakasugi, Miki Nakagawa, Shun-ichi Matsuura, Takuji Ikeda, Takenori Ishida, Hisakage Funabashi, Ryuichi Hirota, Akio Kuroda
Biosilicification is the process by which organisms incorporate soluble, monomeric silicic acid, Si(OH), in the form of polymerized insoluble silica, SiO. Although the mechanisms underlying eukaryotic biosilicification have been intensively investigated, prokaryotic biosilicification has only recently begun to be studied. We previously reported that biosilicification occurs in the gram-positive, spore-forming
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Cell morphology engineering enhances grazing resistance of Synechococcus elongatus PCC 7942 for non-sterile large-scale cultivation J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-02-09 Narumi Toda, Natsuko Inoue-Kashino, Hazaya Fujita, Ryosuke Yoshida, Kaori Nimura-Matsune, Satoru Watanabe, Akio Kuroda, Yasuhiro Kashino, Ryuichi Hirota
In the practical scale of cyanobacterial cultivation, the golden algae is a well-known predator that causes devastating damage to the culture, referred to as pond crash. The establishment and maintenance of monoculture conditions are ideal for large-scale cultures. However, this is a difficult challenge because microbial contamination is unavoidable in practical-scale culture facilities. In the present
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Deletion of LsSNF1 enhances lipid accumulation in the oleaginous yeast Lipomyces starkeyi J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-02-09 Rikako Sato, Yuuya Fujii, Satoshi Ara, Harutake Yamazaki, Sachiyo Aburatani, Wataru Ogasawara, Hiroaki Takaku
The oleaginous yeast, can have diverse industrial applications due to its remarkable capacity to use various carbon sources for the biosynthesis intracellular triacylglycerides (TAGs). In . , TAG synthesis is enhanced through upregulation of genes involved in citrate-mediated acyl-CoA synthesis and Kennedy pathways through the transcriptional regulator LsSpt23p. High expression of can considerably
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Overexpression of the DHA1 family, ChlH and ChlK, leads to enhanced dicarboxylic acids production in koji fungi, Aspergillus luchuensis mut. kawachii and Aspergillus oryzae J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-02-07 Atsushi Nishitani, Kentaro Hiramatsu, Chihiro Kadooka, Kyoka Hiroshima, Kazutaka Sawada, Kayu Okutsu, Yumiko Yoshizaki, Kazunori Takamine, Masatoshi Goto, Hisanori Tamaki, Taiki Futagami
The white koji fungus mut. secretes substantial amounts of citric acid through the expression of the citric acid exporter CexA, a member of the DHA1 family. In this study, we aimed to characterize 11 CexA homologs (Chl proteins) encoded in the genome of mut. to identify novel transporters useful for organic acid production. We constructed overexpression strains of genes using a disruptant of the mut
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Rapid measurement of sake mash using differential near-infrared spectra of diffuse transmission and transflectance J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-02-06 Hirotaka Naito, Risako Doi, Hironori Maruyama, Atsushi Wada, Yoshinari Morio, Katsusuke Murakami
Currently, various sake brewers employ data-driven approaches to ensure the stable production and supply of high-quality products. This study aimed to develop a novel direct measurement system using near-infrared (NIR) spectroscopy to monitor the fermentation process of sake mash during brewing. Direct measurement of sake mash has been challenging because of the significant absorption bands of water
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Effect of S-adenosyl-methionine accumulation on hineka odor in sake brewed with a non-Kyokai yeast J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-02-03 Yusuke Shibata, Tasuku Yamada, Yuriko Ikeda, Muneyoshi Kanai, Tsutomu Fujii, Takeshi Akao, Tetsuya Goshima, Atsuko Isogai, Toshinari Takahashi
Hineka is a type of off-flavor of sake and is attributed to the presence of several compounds, including a major one called dimethyl trisulfide (DMTS). The production of the main precursor of DMTS involves yeast methionine salvage pathway. The DMTS-producing potential (DMTS-pp) of sake brewed using the Km67 strain, a non-Kyokai sake yeast, is lower than that of sake brewed using Kyokai yeast; however
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Different traits for cold tolerance of extremely thermophilic Calditerricola strains isolated from mesothermal municipal sewage sludge and its hyperthermal compost J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-02-03 Kenji Sakai, Fandi Hidayat, Kazushi Maeda, Ai Sakake, Keisuke Fujishima, Maise Ojima, Kouta Jinya, Yukihiro Tashiro
Extreme thermophiles DD2 and D3 were isolated from mesothermal municipal sludge, a material used for hyperthermal composting. To understand the ecologically anomalous findings, their behavior at various temperatures, membrane fatty acid composition, and draft genome sequences were compared with those of YMO81 and YMO722, already isolated from hyperthermal compost. All four strains grew between 56 and
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Effect of cell adhesiveness of Cell Dome shell on enclosed HeLa cells J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-02-02 Ryotaro Kazama, Shinji Sakai
The Cell Dome is a dome-shaped structure (diameter: 1 mm, height: 270 μm) with cells enclosed within a cavity, covered by a hemispherical hydrogel shell, and immobilized on a glass plate. Given that the cells within Cell Dome are in contact with the inner walls of the hydrogel shell, the properties of the shell are anticipated to influence cell behavior. To date, the impact of the hydrogel shell properties
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Functional analysis of a putative type III polyketide synthase from deep-sea sediment metagenome J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-02-02 Nishanthika Thenmozhi Kulasekaran, Sai Hariharan Sankara Subramanian, Mary Leema Thilakam, Dharani Gopal, Jung Kul Lee, Jeya Marimuthu
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Optimization of medium components for protein production by Escherichia coli with a high-throughput pipeline that uses a deep neural network J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-02-01 Kazuki Watanabe, Tai-Ying Chiou, Masaaki Konishi
To optimize rapidly the medium for green fluorescent protein expression by Escherichia coli with an introduced plasmid, pRSET/emGFP, a single-cycle optimization pipeline was applied. The pipeline included a deep neural network (DNN) and mathematical optimization algorithms with simultaneous optimization of 18 medium components. To evaluate the DNN data sampling method, two methods, orthogonal array
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Identification and characterization of rabbit scFv antibodies suitable for immuno-affinity separation of recombinant human kynureninase from Escherichia coli cell lysate J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-02-01 Kaito Sugimoto, Christos S. Karamitros, Jun-ichi Horiuchi, Yoichi Kumada
In this study we successfully developed an on-demand affinity chromatographic resin for manufacturing non-Fc-based biopharmaceuticals. Affinity chromatography columns with immobilized rabbit single-chain variable fragments (scFvs) were used for directly purifying the recombinant human kynureninase (KYNase) as a model target therapeutic protein from Escherichia coli cell lysates. Among the 38 different
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Metabolome analysis of metabolic burden in Escherichia coli caused by overexpression of green fluorescent protein and delta-rhodopsin J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-01-28 Chinatsu Matsuyama, Taisuke Seike, Nobuyuki Okahashi, Teppei Niide, Kiyotaka Y. Hara, Yoko Hirono-Hara, Jun Ishii, Hiroshi Shimizu, Yoshihiro Toya, Fumio Matsuda
Overexpression of proteins by introducing a DNA vector is among the most important tools for the metabolic engineering of microorganisms such as Escherichia coli. Protein overexpression imposes a burden on metabolism because metabolic pathways must supply building blocks for protein and DNA synthesis. Different E. coli strains have distinct metabolic capacities. In this study, two proteins were overexpressed
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Insight investigation into the response pattern of microbial assembly succession and volatile profiles during the brewing of sauce-flavor baijiu based on bioaugmentation J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-01-24 Weijun Leng, Weiwei Li, Ying Li, Hongyun Lu, Xiuting Li, Ruichang Gao
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Physiological role of the EHL gene in sake yeast and its effects on quality of sake J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-01-19 Kazuko Tomonaga, Jumpei Tanaka, Keiji Kiyoshi, Takeshi Akao, Kota Watanabe, Toshimori Kadokura, Shunichi Nakayama
The EHL1/2/3 genes were identified by whole-genome sequencing of Kyokai No. 7 (K7), which is a well-known representative Japanese sake yeast Saccharomyces cerevisiae. The genes are present in K7, but not in laboratory strain S288C. Although the genes were presumed to encode epoxide hydrolase based on homology analysis, their effect on cellular metabolism in sake yeast has not yet been clarified. We
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Construction of self-cloning Aspergillus oryzae strains with high production of multiple biomass-degrading enzymes on solid-state culture J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-01-18 Satoko Senoo, Tomoko Shintani, Shoko Nieda, Takahiro Shintani, Masahiro Kariyama, Katsuya Gomi
Filamentous fungi produce numerous industrially important enzymes. Among them, Aspergillus oryzae-derived enzymes are widely used in various fermentation applications. In this study, we constructed self-cloning strains that overproduce multiple biomass-degrading enzymes under the control of a strong promoter of α-amylase-coding gene (amyB) using the industrial strain A. oryzae AOK11. Two strains (strains
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Production of alkaline protease by Aspergillus niger in a new combinational paper waste culture medium J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-01-18 Negin Nouri, Leila Sadeghi, Arezu Marefat
Enzymes derived from microbial sources have gained increasing popularity in industrial applications over the past decades. Despite the high production cost, alkaline proteases have wide applications in industries such as tanneries, food production, and detergents. In recent years, there has been a shift towards utilizing natural carbon sources for cultivating microorganisms and extracting proteases
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Disassembly and reassembly of the non-conventional thermophilic C-phycocyanin J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-01-18 Hung Khac Nguyen, Takuo Minato, Takamasa Teramoto, Seiji Ogo, Yoshimitsu Kakuta, Ki-Seok Yoon
C-phycocyanin (CPC), which contains open-chain tetrapyrroles, is a major light-harvesting red-fluorescent protein with an important role in aquatic photosynthesis. Recently, we reported a non-conventional CPC from Thermoleptolyngbya sp. O-77 (CPCO77) that contains two different structures, i.e., a hexameric structure and a non-conventional octameric structure. However, the assembly and disassembly
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Development of a novel tyrosine-based selection system for generation of recombinant Chinese hamster ovary cells J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-01-13 Jun Cheng, Yanmin Zhang, Yuan Tian, Lei Cao, Xuping Liu, Shiwei Miao, Liang Zhao, Qian Ye, Yan Zhou, Wen-Song Tan
Efficiently expanding Chinese hamster ovary (CHO) cells, which serve as the primary host cells for recombinant protein production, have gained increasing industrial significance. A significant hurdle in stable cell line development is the low efficiency of the target gene integrated into the host genome, implying the necessity for an effective screening and selection procedure to separate these stable
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6,7-Bis-(2-methoxyethoxy)-4(3H)-quinazolinone as a novel inhibitor of tyrosinase and potential anti-browning agent of fresh-cut apples J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-01-11 Wei-Ming Chai, Qiuhan Bai, Qiuxia Pan, Linjun Wang, Du Zhu
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Correction of substitution, deletion, and insertion mutations by 5′-tailed duplexes J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-01-11 Hidehiko Kawai, Kento Sato, Taiki Kato, Hiroyuki Kamiya
Germline and somatic mutations cause various diseases, including cancer. Clinical applications of genome editing are keenly anticipated, since it can cure genetic diseases. Recently, we reported that a 5′-tailed duplex (TD), consisting of an approximately 80-base editor strand oligodeoxyribonucleotide and a 35-base assistant strand oligodeoxyribonucleotide, could edit a target gene on plasmid DNA and
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Preparation and performance of biocompatible gadolinium polymer as liver-targeting magnetic resonance imaging contrast agent J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-01-08 Tingting Hu, Chuanling Wan, Youyang Zhan, Xiaojing Li, Yan Zheng
A biocompatible macromolecule-conjugated gadolinium chelate complex (PAV2-EDA-DOTA-Gd) as a new liver-specific contrast agent for magnetic resonance imaging (MRI) was synthesized and evaluated. An aspartic acid–valine copolymer was used as a carrier and ethylenediamine as a chemical linker, and the aspartic acid–valine copolymer was covalently linked to the small molecule MRI contrast agent Gd-DOTA
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Large-scale cultivation of human iPS cells in bioreactor with reciprocal mixing J. Biosci. Bioeng. (IF 2.8) Pub Date : 2024-01-06 Masashi Ueki, Tadashi Suzuki, Yoshikazu Kato
A substantial number of human iPS cells (hiPSCs) is needed for cell therapy to be successful against various diseases. We previously reported on a bioreactor with reciprocal mixing that produces specific physical properties that differ from those of conventional bioreactors with rotary paddle stirring. Moreover, such reactors not only provide a homogeneous environment but also allow the control of
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Whole-genome sequence and characterization of a marine red yeast, Rhodosporidium sphaerocarpum GDMCC 60679, featuring the assimilation of ammonia nitrogen J. Biosci. Bioeng. (IF 2.8) Pub Date : 2023-12-27 Chuanhao Pan, Jiayue Yin, Bo Ma, Jing Wen, Peng Luo
A marine red yeast, Rhodosporidium sphaerocarpum, is generally used for the production of lipids and carotenoids. In a previous study, we demonstrated that a marine-derived R. sphaerocarpum GDMCC 60679 can efficiently remove ammonia nitrogen and exhibit multiple probiotic functions for shrimp, Litopenaeus vannamei. Here, we performed a genome assembly of the strain GDMCC 60679 using a combination of
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Highly genomic instability of super-polyploid strains of Saccharomyces cerevisiae J. Biosci. Bioeng. (IF 2.8) Pub Date : 2023-12-21 Saeka Hirota, Yuji Nakayama, Keisuke Ekino, Satoshi Harashima
Polyploid (2n, 3n, and 4n) genomes are known to be unstable in Saccharomyces cerevisiae. Here, we attempted construction of super-polypoid strains (defined as having higher ploidy than tetraploidy) up to 32n by using the matα2-PBT method that we newly developed and investigated their genomic stability. It is known that cell size increases as ploidy increases up to tetraploid. However, unexpectedly
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Characterization of novel endo-β-N-acetylglucosaminidases from intestinal Barnesiella intestinihominis that hydrolyze multi-branched complex-type N-glycans J. Biosci. Bioeng. (IF 2.8) Pub Date : 2023-12-22 Kanako Doi, Ai Mitani, Shin-ichi Nakakita, Yujiro Higuchi, Kaoru Takegawa
Endo-β-N-acetylglucosaminidases (ENGases) are enzymes that hydrolyze N-linked glycans. Many ENGases have been characterized, but few have been identified with hydrolytic activity towards multi-branched complex-type N-glycans. In this study, three candidate ENGases were identified from Barnesiella intestinihominis based on database searches and phylogenetic analysis. A domain search identified the N
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Optimization of tyrosol-producing pathway with tyrosine decarboxylase and tyramine oxidase in high-tyrosine-producing Escherichia coli J. Biosci. Bioeng. (IF 2.8) Pub Date : 2023-12-21 Ning Shen, Yasuharu Satoh, Daisuke Koma, Hiroyuki Ohashi, Yasushi Ogasawara, Tohru Dairi
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Growth prolongation of human induced pluripotent stem cell aggregate in three-dimensional suspension culture system by addition of botulinum hemagglutinin J. Biosci. Bioeng. (IF 2.8) Pub Date : 2023-12-17 Riku Yamamoto, Ryo Sakakibara, Mee-Hae Kim, Yukako Fujinaga, Masahiro Kino-oka
Human induced pluripotent stem cells (hiPSCs) can be used in regenerative therapy as an irresistible cell source, and so the development of scalable production of hiPSCs for three-dimensional (3D) suspension culture is required. In this study, we established a simple culture strategy for improving hiPSC aggregate growth using botulinum hemagglutinin (HA), which disrupts cell–cell adhesion mediated
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THI3 contributes to isoamyl alcohol biosynthesis through thiamine diphosphate homeostasis J. Biosci. Bioeng. (IF 2.8) Pub Date : 2023-12-15 Yuki Kobashi, Yumiko Yoshizaki, Kayu Okutsu, Taiki Futagami, Hisanori Tamaki, Kazunori Takamine
Isoamyl alcohol is a precursor of isoamyl acetate, an aromatic compound that imparts the ginjo aroma to sake. The isoamyl alcohol biosynthesis pathway in yeasts involves the genes PDC1, PDC5, PDC6, ARO10, and THI3 encoding enzymes that decarboxylate α-ketoisocaproic acid to isovaleraldehyde. Among these genes, THI3 is the main gene involved in isoamyl alcohol biosynthesis. Decreased production of isoamyl
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Environmental factors drive microbial community succession in biofortified wheat Qu and its improvement on the quality of Chinese huangjiu J. Biosci. Bioeng. (IF 2.8) Pub Date : 2023-12-14 Donglin Ma, Shuangping Liu, Haipo Liu, Suyi Zhang, Yuezheng Xu, Jian Mao
Wheat Qu plays the role of saccharification fermentation, providing microorganisms and flavor in the fermentation of huangjiu, and the use of functional microorganisms to fortify wheat Qu is becoming increasingly popular. Yet, the mechanisms promoting microbial successions of wheat Qu remain unclear. In this study, we first correlated microbial community succession with physicochemical factors (moisture
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Screening of novel DPP-IV inhibitory peptides derived from bovine milk proteins using a peptide array platform J. Biosci. Bioeng. (IF 2.8) Pub Date : 2023-12-13 Sayuri Arai, Masaki Kurimoto, Hajime Nakada, Masayoshi Tanaka, Hiroshi Ochi, Miyuki Tanaka, Mina Okochi
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Beneficial effect of optimizing the expression balance of the mevalonate pathway introduced into the mitochondria on terpenoid production in Saccharomyces cerevisiae J. Biosci. Bioeng. (IF 2.8) Pub Date : 2023-12-01 So Yanagibashi, Takahiro Bamba, Takayoshi Kirisako, Akihiko Kondo, Tomohisa Hasunuma
Terpenoids are used in various industries, and Saccharomyces cerevisiae is a promising microorganism for terpenoid production. Introducing the mevalonate (MVA) pathway into the mitochondria of a strain with an augmented inherent cytosolic MVA pathway increased terpenoid production but also led to the accumulation of toxic pyrophosphate intermediates that negatively affected terpenoid production. We
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Biotransformation-guided purification of a novel glycoside derived from the extracts of Chinese herb Baizhi J. Biosci. Bioeng. (IF 2.8) Pub Date : 2023-11-29 Te-Sheng Chang, Hsiou-Yu Ding, Jiumn-Yih Wu, Min-Lin Wang, Huei-Ju Ting
Our pursuit of new compounds with enhanced bioavailability and bioactivity prompted us to employ the biotransformation-guided purification (BGP) approach which leverages proficient in vitro biotransformation techniques. Angelica dahurica roots, also called Baizhi in Chinese traditional medicine, are famous for their anti-inflammatory and analgesic properties. Herein, we applied the BGP methodology
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Exosomes for hair growth and regeneration J. Biosci. Bioeng. (IF 2.8) Pub Date : 2023-11-23 Yinghui Zhou, Jieun Seo, Shan Tu, Ayaka Nanmo, Tatsuto Kageyama, Junji Fukuda
Exosomes are lipid bilayer vesicles, 30–200 nm in diameter, that are produced by cells and play essential roles in cell–cell communication. Exosomes have been studied in several medical fields including dermatology. Hair loss, a major disorder that affects people and sometimes causes mental stress, urgently requires more effective treatment. Because the growth and cycling of hair follicles are governed
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Effect of yeast chromosome II aneuploidy on malate production in sake brewing J. Biosci. Bioeng. (IF 2.8) Pub Date : 2023-11-21 Natsuki Hotta, Atsushi Kotaka, Kengo Matsumura, Yu Sasano, Yoji Hata, Tomoka Harada, Minetaka Sugiyama, Satoshi Harashima, Hiroki Ishida
Chromosome aneuploidy is a common phenomenon in industrial yeast. Aneuploidy is considered one of the strategies to enhance the industrial properties of Saccharomyces cerevisiae strains. However, the effects of chromosomal aneuploidy on the brewing properties of sake have not been extensively studied. In this study, sake brewing was performed using a series of genome-wide segmental duplicated laboratory
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Homozygous gene disruption in diploid yeast through a single transformation J. Biosci. Bioeng. (IF 2.8) Pub Date : 2023-11-18 Yuki Kobashi, Eri Nakayama, Naoki Fukumori, Ayane Shimojima, Manami Tabira, Yuki Nishimura, Manami Mukae, Ai Muto, Naoto Nakashima, Kayu Okutsu, Yumiko Yoshizaki, Taiki Futagami, Kazunori Takamine, Hisanori Tamaki
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Effects of genome instability of parental CHO cell clones on chromosome number distribution and recombinant protein production in parent-derived subclones J. Biosci. Bioeng. (IF 2.8) Pub Date : 2023-11-18 Noriko Yamano-Adachi, Hirofumi Hata, Yuto Nakanishi, Takeshi Omasa
Chinese hamster ovary (CHO) cells are the de facto standard host cells for biopharmaceuticals, and there is great interest in developing methods for constructing stable production cell lines. In this study, clones with a wide chromosome number distribution were selected from isolated antibody-producing strains, and subclones obtained from these clones were evaluated. The transgene copy number varied
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Identification and characterization of a pab gene cluster responsible for the 4-aminobenzoate degradation pathway, including its involvement in the formation of a γ-glutamylated intermediate in Paraburkholderia terrae strain KU-15 J. Biosci. Bioeng. (IF 2.8) Pub Date : 2023-11-17 Yaxuan Liu, Kenji Okano, Hiroaki Iwaki
Paraburkholderia terrae strain KU-15 grows on 2- and 4-nitrobenzoate and 2- and 4-aminobenzoate (ABA) as the sole nitrogen and carbon sources. The genes responsible for the potential degradation of 2- and 4-nitrobenzoate and 2-ABA have been predicted from its genome sequence. In this study, we identified the pab operon in P. terrae strain KU-15. This operon is responsible for the 4-ABA degradation
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Coculture model of a liver sinusoidal endothelial cell barrier and HepG2/C3a spheroids-on-chip in an advanced fluidic platform J. Biosci. Bioeng. (IF 2.8) Pub Date : 2023-11-14 Taha Messelmani, Anne Le Goff, Fabrice Soncin, Zied Souguir, Franck Merlier, Nathalie Maubon, Cécile Legallais, Eric Leclerc, Rachid Jellali
The liver is one of the main organs involved in the metabolism of xenobiotics and a key organ in toxicity studies. Prior to accessing the hepatocytes, xenobiotics pass through the hepatic sinusoid formed by liver sinusoidal endothelial cells (LSECs). The LSECs barrier regulates the kinetics and concentrations of the xenobiotics before their metabolic processing by the hepatocytes. To mimic this physiological
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Comprehensive metabolic profiling of Geotrichum candidum and comparison with Saccharomyces cerevisiae J. Biosci. Bioeng. (IF 2.8) Pub Date : 2023-11-14 Takahiro Bamba, Yoshimi Hori, Kyohei Umebayashi, Chieko Soh, Tomohiro Hakozaki, Kazumi Toyama, Masako Osumi, Akihiko Kondo, Tomohisa Hasunuma
Geotrichum candidum is a dimorphic yeast used in cheese processing. To our knowledge, no major metabolites have been identified to date in G. candidum except for some amino acid and fatty acid metabolites. This has limited research on the commercial use of G. candidum. In this study, we aimed to analyze temporal changes in the intra- and extra-cellular metabolites of G. candidum and Saccharomyces cerevisiae
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PKA-Msn2/4-Shy1 cascade controls inhibition of proline utilization under wine fermentation models J. Biosci. Bioeng. (IF 2.8) Pub Date : 2023-11-07 Akira Nishimura, Ryoya Tanahashi, Hayate Nakazawa, Tomoki Oi, Misaki Mima, Hiroshi Takagi
Proline, which is a predominant amino acid in grape musts, is involved in the taste and flavor of foods and beverages. The yeast Saccharomyces cerevisiae poorly utilizes proline in wine-making processes, leading to a nitrogen deficiency during fermentation and proline accumulation in wine. Previous studies have shown that the protein kinase A (PKA) pathway is involved in inhibitory mechanisms of proline
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Growth of the Nitrosomonas europaea cells in the biofilm and planktonic growth mode: Responses of extracellular polymeric substances production and transcriptome J. Biosci. Bioeng. (IF 2.8) Pub Date : 2023-11-03 Mamoru Oshiki, Takahiro Saito, Yuki Nakaya, Hisashi Satoh, Satoshi Okabe
Nitrosomonas europaea, an aerobic ammonia oxidizing bacterium, is responsible for the first and rate-limiting step of the nitrification process, and their ammonia oxidation activities are critical for the biogeochemical cycling and the biological nitrogen removal of wastewater treatment. In the present study, N. europaea cells were cultivated in the inorganic or organic media (the NBRC829 and the nutrient-rich
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Agent-based approach for elucidating the release from collective arrest of cell motion in corneal epithelial cell sheet J. Biosci. Bioeng. (IF 2.8) Pub Date : 2023-11-02 Junya Kamioka, Kei Sasaki, Koichi Baba, Tomoyo Tanaka, Yosuke Teranishi, Takahiro Ogasawara, Masukazu Inoie, Ken-ichiro Hata, Kohji Nishida, Masahiro Kino-oka
Changes in cell fluidity have been observed in various cellular tissues and are strongly linked to biological phenomena such as self-organization. Recent studies suggested variety of mechanisms and factors, which are still being investigated. This study aimed to investigate changes in cell fluidity in multi-layered cell sheets, by exploring the collective arrest of cell motion and its release in cultures
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Use of the selected metal-dependent enzymes for exploring applicability of human annexin A1 as a purification tag J. Biosci. Bioeng. (IF 2.8) Pub Date : 2023-10-06 Shuncheng Zhang, Tingting Lin, Di Zhang, Xiaofeng Chen, Yuanyuan Ge, Qing Gao, Jun Fan
Several fusion tags have been developed for non-chromatographic fusion protein purification. Previously, we identified that human annexin A1 as a novel N-terminal purification tag was used for purifying the fusion proteins produced in Escherichia coli through precipitation in 10 mM Ca2+ buffer, and redissolution of the precipitate in 15 mM EDTA buffer. In this work, we selected four metal-dependent
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Characterization of enzyme-crosslinked albumin hydrogel for cell encapsulation J. Biosci. Bioeng. (IF 2.8) Pub Date : 2023-10-03 Kousuke Moriyama, Noe Inomoto, Hidetoshi Moriuchi, Masanobu Nihei, Miku Sato, Yoshiki Miyagi, Ayaka Tajiri, Takeshi Sato, Yasuhiko Tanaka, Yuuki Johno, Masahiro Goto, Noriho Kamiya
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Metabolomics analysis of the metabolic effects of citric acid on Issatchenkia terricola WJL-G4 J. Biosci. Bioeng. (IF 2.8) Pub Date : 2023-10-03 Jiajia Mei, Xiaojie Liu, Xinyi Liu, Yihong Bao, Ting Luo, Jinling Wang