Article
Biochemistry & Molecular Biology
Cristina Manis, Antonio Murgia, Alessia Manca, Antonella Pantaleo, Giacomo Cao, Pierluigi Caboni
Summary: Our study using a hyphenated ion mobility mass spectrometric platform for lipid profiling of human erythrocytes expands the understanding of cellular processes and stress due to microgravity. We identified complex lipids associated with microgravity conditions, such as oxidized phosphocholines, phosphocholines bearing arachidonic in their moiety, as well as sphingomyelins and hexosyl ceramides. These findings provide insights into molecular alterations and erythrocyte lipidomics signatures associated with microgravity conditions.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Environmental Sciences
Michael Priestley, Thomas J. Bannan, Michael Le Breton, Stephen D. Worrall, Sungah Kang, Iida Pullinen, Sebastian Schmitt, Ralf Tillmann, Einhard Kleist, Defeng Zhao, Jurgen Wildt, Olga Garmash, Archit Mehra, Asan Bacak, Dudley E. Shallcross, Astrid Kiendler-Scharr, Asa M. Hallquist, Mikael Ehn, Hugh Coe, Carl J. Percival, Mattias Hallquist, Thomas F. Mentel, Gordon McFiggans
Summary: The study examines benzene oxidation products using different mass spectrometry methods, finding that the nitrate scheme detects more high mass products, while the iodide scheme is more sensitive to IVOCs and SVOCs.
ATMOSPHERIC CHEMISTRY AND PHYSICS
(2021)
Article
Chemistry, Analytical
Hyun-Hee Lim, Kyeong-Yun Choi, Ho-Sang Shin
Summary: A GC-MS method was developed for the analysis of flavor chemicals in THPs, TTPs, and their flavoring capsules, identifying 283 compounds. The precision of the analytical method was less than 24.5%, and the accuracy ranged from 80% to 120%. PCA analysis showed that flavor chemicals can be used to differentiate brands and manufacturers of tobacco products.
JOURNAL OF PHARMACEUTICAL AND BIOMEDICAL ANALYSIS
(2022)
Article
Agriculture, Multidisciplinary
Donatien Lefebvre, Kevin Blanco-Valle, Cecile Feraudet-Tarisse, Deborah Merda, Stephanie Simon, Francois Fenaille, Jacques-Antoine Hennekinne, Yacine Nia, Francois Becher
Summary: The study introduced a new food testing protocol utilizing high-resolution mass spectrometry for simultaneous and quantitative determination of the eight most frequent Staphylococcal enterotoxins, including sequence variants. The assay was validated in dairy food products with a lower limit of quantification down to 0.1 ng/g, and successfully demonstrated quantification of SEs in real-life samples. The method's ability to detect diverse sequence variants highlights its potential for facilitating laboratory confirmation of positive samples in food poisoning outbreaks.
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
(2021)
Article
Environmental Sciences
Xiaoxiao Lin, Xiaofeng Tang, Zuoying Wen, Bo Long, Christa Fittschen, Xuejun Gu, Yanbo Gai, Weijun Zhang
Summary: The oxidation of 1,3,5-trimethylbenzene (1,3,5-TMB) initiated by OH under NOx-free conditions was studied using experimental and theoretical methods. The presence of high mass O-2-bridged bicyclic compounds in the particle phase was observed and confirmed. Theoretical calculations shed light on the mechanism of formation of these bicyclic compounds.
ATMOSPHERIC ENVIRONMENT
(2022)
Article
Environmental Sciences
Lijuan Peng, Chun Peng, Shulin Fu, Yinsheng Qiu
Summary: Colistin has moderate adsorption affinity to soils and its adsorption is irreversible, while the degradation rate is relatively slow. Colistin can remain in the soil for a considerable amount of time after being introduced via animal excreta.
ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY
(2022)
Article
Biochemistry & Molecular Biology
Hend Zedan, Kousuke Morimura, Amr Elguoshy, Tadashi Yamamoto, Shunji Natsuka
Summary: Urine is an excellent biological fluid for biomarker discovery, reflecting both systemic and urogenital physiology. Thoroughly analyzing the N-glycome in urine has been challenging due to the low abundance of glycans attached to glycoproteins. This study successfully identified and quantified 109 N-glycans in urine, with approximately 50% coming from the kidney and urinary tract. Additionally, age/sex were found to correlate with the relative abundances of urinary N-glycome.
Article
Chemistry, Analytical
Daniel D. Vallejo, Jukyung Kang, Jill Coghlan, Carolina Rojas Ramirez, Daniel A. Polasky, Ruwan T. Kurulugama, John C. Fjeldsted, Anna A. Schwendeman, Brandon T. Ruotolo
Summary: The study demonstrates the sensitivity of CIU to changes in mAb structure induced by heat stress, with DSC being less sensitive to these alterations. Both instrumental platforms are able to differentiate mAbs, although minor differences between the results obtained on the two instruments were observed. CIU-based heatmaps and classification offer a rapid assessment of the most differentiating charge states for analysis of infliximab, conservatively estimated to improve mAb stability and HOS measurements' efficiency by 30-fold compared to standard DSC tools.
ANALYTICAL CHEMISTRY
(2021)
Article
Meteorology & Atmospheric Sciences
A. V. Sreenath, Neelam Malap, S. Abhilash, Gayatri Urankar Kulkarni, Thara Prabhakaran
Summary: The study found that oceanic air masses from the Bay of Bengal support a clean atmosphere with fewer droplets in clouds, while a mixture of air masses from the Arabian Sea, Bay of Bengal, and central Indian region creates a moderately polluted atmosphere that enhances convective cloud depth and processes. High levels of pollution from continental air masses result in a highly polluted atmosphere with reduced efficiency in the precipitation process.
ATMOSPHERIC RESEARCH
(2021)
Article
Chemistry, Analytical
Claudia Ctortecka, Karel Stejskal, Gabriela Krssakova, Sasha Mendjan, Karl Mechtler
Summary: Advancements in single-cell proteomics workflows have enhanced sensitivity and reproducibility for characterizing unknown biological phenomena. The introduction of multiplexed single-cell proteomics has led to a trend of combining single-cell measurements with abundant carriers to improve precursor selection and identification accuracy, although extreme carrier spikes may affect quantitative accuracy. Narrowly titrated carrier spikes have been found to provide comparable sensitivity with superior accuracy, while alternative multiplexing strategies can help evaluate data quality. Ultimately, optimized experimental designs for multiplexed proteomics of trace samples can lead to improved quantitative accuracy and elevated replicate overlap.
ANALYTICAL CHEMISTRY
(2022)
Article
Chemistry, Analytical
Huihui Liu, Ting Xie, Jiyun Wang, Xiao Wang, Jing Han, Zhihua Huang, Lixia Jiang, Zongxiu Nie
Summary: HIE is a major cause of neurological disability and fetal or neonatal asphyxia death. The study found significant changes in metabolites involved in multiple metabolic pathways during the HIE period, including the accumulation of neutral TGs in the ischemic region.
Article
Chemistry, Analytical
Clement Castilla, Christopher P. Ruger, Helene Lavanant, Carlos Afonso
Summary: The study compared the fast pyrolysis molecular patterns of five lignocellulosic biomasses and explored the pyrolysis products of biomass through chemical characterization. Various mass spectrometry techniques were used to determine the isomeric similarities between different wood samples.
JOURNAL OF ANALYTICAL AND APPLIED PYROLYSIS
(2021)
Article
Chemistry, Analytical
Yongyi Li, Shuai Zhao, Yunpeng Sun, Jixin Li, Yongyue Wang, Wenjun Xu, Jun Luo, Lingyi Kong
Summary: In this study, a program called LindenaneExtractor was developed to automatically extract the features of target natural products in plants using characteristic MS/MS ions. Through the study of characteristic ions and coding, a total of 96 target compounds were discovered, with 37 of them potentially being new natural products.
ANALYTICAL CHEMISTRY
(2022)
Article
Chemistry, Analytical
Chaoying Zhang, Zengnan Wu, Xinchang Gao, Xia Wang, Haifang Li, Jin-Ming Lin
Summary: This study proposes a noninterference ion addition (NIA) method by electrolysis to improve homogeneous crystallization during the evaporation process of sample droplets on the target plate, thus improving the quantitative detection of bacteria using MALDI-TOF MS. By inserting an active metal wire as the anode electrode in the droplet and releasing metal ions through electrolysis, the directional migration of metal ions under the electric field can hinder the migration of matrix molecules and homogenize the matrix crystals. Simultaneously, trace cationic surfactant is added to the droplet for pinning the contact surface to define the circular crystallization region. Metal ions from the anode electrode wire are deposited on the surface of the target plates, serving as the cathode, and do not interfere with ionization during MALDI-MS detection. This NIA method benefits homogeneous crystallization and improves quantitative analysis, making it suitable for biological samples with different matrices and allowing for quantitative analysis of bacterial samples.
ANALYTICAL CHEMISTRY
(2023)
Article
Nutrition & Dietetics
Elise Mank, Dewi van Harskamp, Letty van Toledo, Johannes B. van Goudoever, Henk Schierbeek
Summary: The study aimed to develop a protocol for assessing intestinal permeability and lactase activity in human-milk-fed preterm infants through a sugar absorption test. A new GC-MS method was developed to analyze lactulose, lactose, and mannitol in urine and milk samples collected during the sugar absorption test. The protocol and GC-MS method provide valuable tools for monitoring the effects of nutritional interventions in preterm infants.
CLINICAL NUTRITION
(2021)
Article
Biotechnology & Applied Microbiology
Kenshi Watanabe, Charose Marie Ting Perez, Tomoki Kitahori, Kosuke Hata, Masato Aoi, Hirokazu Takahashi, Tetsushi Sakuma, Yoshiko Okamura, Yutaka Nakashimada, Takashi Yamamoto, Keisuke Matsuyama, Shinzo Mayuzumi, Tsunehiro Aki
Summary: Efficiency of specific gene knock-in by homologous recombination was significantly increased by over 10 times through combining the CRISPR-Cas9 system in Aurantiochytrium strains. Genome edited strains with higher fatty acid productivity were isolated by disrupting genes associated with beta-oxidation, demonstrating the effectiveness of CRISPR-Cas9 for molecular breeding in Aurantiochytrium species to improve lipid productivity.
JOURNAL OF BIOSCIENCE AND BIOENGINEERING
(2021)
Article
Biotechnology & Applied Microbiology
Junya Kato, Kaisei Takemura, Setsu Kato, Tatsuya Fujii, Keisuke Wada, Yuki Iwasaki, Yoshiteru Aoi, Akinori Matsushika, Katsuji Murakami, Yutaka Nakashimada
Summary: Genetic engineering successfully enhanced acetone productivity in Moorella thermoacetica, with the highest productivity obtained under CO-H-2 conditions. Additionally, adding H-2 to CO increased acetone productivity from the same carbon source, with the maximum specific acetone production rate also increasing.
Article
Biotechnology & Applied Microbiology
Kaisei Takemura, Junya Kato, Setsu Kato, Tatsuya Fujii, Keisuke Wada, Yuki Iwasaki, Yoshiteru Aoi, Akinori Matsushika, Katsuji Murakami, Yutaka Nakashimada
Summary: Gas fermentation is a promising process for converting CO2 or syngas into valuable chemicals. Homaoacetogens are capable of autotrophic growth using CO2 and H-2 or CO to produce acetate. Through metabolic engineering, it was found that maintaining a level of acetate production along with supplying energy-rich CO allows the homoacetogen to maintain autotrophic growth on syngas.
JOURNAL OF BIOSCIENCE AND BIOENGINEERING
(2021)
Article
Biotechnology & Applied Microbiology
Gonglinfeng Luo, Sotaro Fujii, Takumi Koda, Takahisa Tajima, Yoshihiro Sambongi, Akiko Hida, Junichi Kato
Summary: The study discovered that a malic enzyme from a psychrophilic bacterium showed high activity at 60 degrees Celsius and remained relatively stable at higher temperatures, making it suitable for bioconversion of NADP to NADPH.
JOURNAL OF BIOSCIENCE AND BIOENGINEERING
(2021)
Article
Microbiology
Kyohei Horio, Hirokazu Takahashi, Toshiro Kobori, Kenshi Watanabe, Tsunehiro Aki, Yutaka Nakashimada, Yoshiko Okamura
Summary: A novel method for gene expression detection, sensitive to sample conditions, has been developed, capable of detecting short mRNA in bacterial cells. The study demonstrates the effectiveness of this method in monitoring functional gene expression in LAB cells and highlights discrepancies between bulk analysis data and individual cell gene expression.
Article
Biotechnology & Applied Microbiology
Haruka Uno, Hiyori Takeuchi, Tomoko Yoshino, Takashi Tadenuma, Yuko Hirakawa, Yoshiaki Maeda, Tomoyuki Taguchi, Tadashi Matsunaga, Tsuyoshi Tanaka
Summary: This study proposes a strategy to rationally design DNA microarray signaling probe sequences based on thermodynamic analysis, which successfully improves probe performance and enables direct detection of bacterial genes.
JOURNAL OF BIOSCIENCE AND BIOENGINEERING
(2022)
Article
Biology
Ryo Negishi, Hitomi Yamakawa, Takeru Kobayashi, Mayuko Horikawa, Tatsu Shimoyama, Fumiaki Koizumi, Takeshi Sawada, Keisuke Oboki, Yasushi Omuro, Chikako Funasaka, Akihiko Kageyama, Yusuke Kanemasa, Tsuyoshi Tanaka, Tadashi Matsunaga, Tomoko Yoshino
Summary: The study reports the transcriptome analysis of single circulating tumor cells (CTCs) from gastric cancer patients, revealing that the majority of gastric CTCs have undergone EMT and indicating the contribution of platelet adhesion towards EMT progression and chemoresistance acquisition.
COMMUNICATIONS BIOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Kosuke Arai, Satoshi Murata, Taifeng Wang, Wataru Yoshimura, Mayumi Oda-Tokuhisa, Tadashi Matsunaga, David Kisailus, Atsushi Arakaki
Summary: Biomineralization is a complex process that controls the deposition of inorganic materials in living organisms with the help of associated proteins. Mms6, a protein isolated from the surfaces of bacterial magnetite nanoparticles, plays a crucial role in regulating the crystal morphology of magnetite. The study demonstrates the direct adsorption ability of Mms6 on magnetite nanoparticles and other inorganic nanoparticles, suggesting its potential use in biomedical and medicinal applications.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biotechnology & Applied Microbiology
Hiroto Maeda, Yuto Hirata, Hirokazu Takahashi, Kenshi Watanabe, Tsunehiro Aki, Yoshiko Okamura
Summary: In this study, a gene transfer system was established for Nitratireductor sp. OM-1, and the function of the thioesterase gene (te) in butenoic acid production was confirmed.
MARINE BIOTECHNOLOGY
(2023)
Article
Agricultural Engineering
Luong Van Duc, Shintaro Nagao, Mohammad Mojarrad, Yuta Miyagawa, Zi-Yan Li, Daisuke Inoue, Takahisa Tajima, Michihiko Ike
Summary: This study evaluated whether bioaugmentation using marine sediment-derived microbial consortia could alleviate the inhibitory effects of ammonium (NH4+) and salinity (NaCl) on methane (CH4) production in anaerobic digestion, and elucidated the underlying mechanisms. The results showed that bioaugmentation enhanced CH4 production compared to non-bioaugmentation. Network analysis revealed the joint effects of microbial connections by Methanoculleus, which promoted the efficient consumption of propionate accumulated under NH4+ and NaCl stresses. Overall, bioaugmentation with pre-acclimated marine sediment-derived microbial consortia can mitigate the inhibition under NH4+ or NaCl stress and enhance CH4 production in anaerobic digestion.
BIORESOURCE TECHNOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Yoshiko Okamura, Ryo Shimizu, Yoriko Tominaga, Sachiko Maki, Tsunehiro Aki, Yukihiko Matsumura, Yutaka Nakashimada
Summary: Microorganisms in a polluted environment can biomineralize heavy metals, including forming minerals with compositions similar to semiconductors. In this study, bacteria were screened to produce lead sulfide (PbS) nanoparticles with semiconductor properties. The resulting nanoparticles exhibited crystallinity and were characterized using various techniques. The biogenic PbS nanoparticles showed ultrafine crystalline structures and demonstrated semiconductor quantum dot behavior.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biotechnology & Applied Microbiology
Gamal Nasser Abdel-Hady, Takahisa Tajima, Takeshi Ikeda, Takenori Ishida, Hisakage Funabashi, Akio Kuroda, Ryuichi Hirota
Summary: In this study, we cloned and expressed a promising enzyme Ct-PtxD for NAD(P)H regeneration from a marine cyanobacterium. Ct-PtxD showed increased resistance to salt ions and organic solvents compared to previously reported PtxD enzymes. It also demonstrated higher efficiency in the coupled chiral conversion of trimethylpyruvic acid, making it a potential candidate for industrial applications.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2023)
Meeting Abstract
Chemistry, Applied
Kenshi Watanabe, Miho Nishijima, Shinzo Mayuzumi, Tsunehiro Aki
JOURNAL OF THE AMERICAN OIL CHEMISTS SOCIETY
(2022)
Article
Chemistry, Applied
Kenshi Watanabe, Miho Nishijima, Shinzo Mayuzumi, Tsunehiro Aki
Summary: Thraustochytrid, Aurantiochytrium sp., is a microorganism that produces various useful substances. Lignocellulosic biomass can be used as a feedstock to extract these substances using steam explosion. However, the by-products of steam explosion inhibit the growth and lipid production of Aurantiochytrium sp. This study found that certain by-products were particularly inhibitory, but treating the biomass to reduce the concentration of a major inhibitory component could alleviate the inhibition.
JOURNAL OF OLEO SCIENCE
(2022)
Article
Chemistry, Analytical
Yoshiaki Maeda, Tomoko Yoshino, Atsushi Kogiso, Ryo Negishi, Tomohiro Takabayashi, Hikaru Tago, Tae-Kyu Lim, Manabu Harada, Tadashi Matsunaga, Tsuyoshi Tanaka
Summary: This study evaluated the potential of a lensless imaging system as a tool for monitoring circulating tumor cell (CTC) cultivation. It successfully discriminated between tumor cells and blood cells, and combined a high-efficiency CTC recovery device in experimental setup.
