Article
Biotechnology & Applied Microbiology
Amy Henrickson, Xiaozhe Ding, Austin G. Seal, Zhe Qu, Lauren Tomlinson, John Forsey, Viviana Gradinaru, Kazuhiro Oka, Borries Demeler
Summary: This study presents guidelines for experimental design of multi-wavelength analytical ultracentrifugation (MW-AUC) and compares its results with other methods. The results demonstrate that MW-AUC provides more accurate characterization and quantification of adeno-associated viruses, and identifies contaminants.
Article
Medicine, Research & Experimental
Kweku K. Amponsah-Efah, Borries Demeler, Raj Suryanarayanan
Summary: This study presents a new approach using AUC to characterize drug-polymer interactions in aqueous media. The sedimentation profiles of drug-polymer mixtures differ from those of the neat drug and polymer, indicating the presence of interactions between the two components.
MOLECULAR PHARMACEUTICS
(2021)
Article
Chemistry, Physical
Eva Peters, Rose Rosenberg, Helmut Coelfen, Klaus Boldt
Summary: Analytical ultracentrifugation is a promising tool to analyze the properties and growth process of magic-size clusters, which have been a challenging subject in research.
JOURNAL OF PHYSICAL CHEMISTRY C
(2022)
Article
Chemistry, Medicinal
Takahiro Maruno, Kaede Usami, Kentaro Ishii, Tetsuo Torisu, Susumu Uchiyama
Summary: A multiwavelength sedimentation velocity analytical ultracentrifugation method was developed to characterize different types of particles and impurities in adeno-associated virus vector samples. This method can help reduce impurities in vector samples and establish a comprehensive approach for quantifying viral vector particles and related impurities.
JOURNAL OF PHARMACEUTICAL SCIENCES
(2021)
Article
Biophysics
Sylvie Saleun, Caroline Mas, Aline Le Roy, Magalie Penaud-Budloo, Oumeya Adjali, Veronique Blouin, Christine Ebel
Summary: Recombinant adeno-associated virus virus-derived vectors (rAAVs) are widely used in vivo gene therapies due to their safety profile. However, rAAV production often results in a heterogeneous vector population with undesired empty particles. Analytical ultracentrifugation sedimentation velocity (AUC-SV) is a gold standard technique to measure the relative amounts of each vector subpopulation and components. This letter discusses the principle and practice of using AUC for rAAVs characterization, including the use of interference optics to estimate weight percentages of different capsid populations and the genome size incorporated in rAAV particles.
EUROPEAN BIOPHYSICS JOURNAL WITH BIOPHYSICS LETTERS
(2023)
Article
Biophysics
Huaying Zhao, Ai Nguyen, Samuel C. To, Peter Schuck
Summary: Analytical ultracentrifugation (AUC) provides absolute measurements of macromolecular parameters, but many instruments suffer from significant systematic errors. External calibration can greatly improve measurement precision and consistency.
EUROPEAN BIOPHYSICS JOURNAL WITH BIOPHYSICS LETTERS
(2021)
Article
Biochemical Research Methods
Steven A. Berkowitz, Thomas Laue
Summary: Analytical ultracentrifugation (AUC) is the most widely applicable method for characterizing solution properties, with sedimentation velocity AUC (SV-AUC) being particularly important in assessing protein aggregation during drug development. The latest ultracentrifuge model, Optima, has shown evidence of sample convection due to design issues in the temperature control system, primarily affecting low rotor speeds and dilute solvent components used in AAV analysis. Diagnostic features and strategies for reducing this issue are provided.
ANALYTICAL BIOCHEMISTRY
(2021)
Article
Biochemistry & Molecular Biology
Sara Garcia-Linares, Rafael Amigot-Sanchez, Carmen Garcia-Montoya, Diego Heras-Marquez, Carlos Alfonso, Juan Roman Luque-Ortega, Jose G. Gavilanes, Alvaro Martinez-Del-Pozo, Juan Palacios-Ortega
Summary: Sticholysins are pore-forming toxins produced by the sea anemone Stichodactyla helianthus. StnII can enhance the activity of StnI and promote its oligomerization. Analytical ultracentrifugation experiments show that StnI is more prone to oligomerization in water solution, but a small amount of StnII in StnI-StnII mixtures can promote oligomerization.
Article
Chemistry, Physical
Thomas Meincke, Johannes Walter, Lukas Pflug, Thaseem Thajudeen, Andreas Voelkl, Paola Cardenas Lopez, Maximilian J. Uttinger, Michael Stingl, Satoshi Watanabe, Wolfgang Peukert, Robin N. Klupp Taylor
Summary: Anisotropic nanoparticles with tunable optical properties are synthesized through electroless deposition of silver patches onto colloidal silica particles. New methods are needed to rapidly determine patch yield, thickness, and coverage for process optimization. A novel approach based on multiwavelength analytical ultracentrifugation is presented, allowing simultaneous hydrodynamic and spectroscopic characterization of patchy particles.
JOURNAL OF COLLOID AND INTERFACE SCIENCE
(2022)
Article
Biochemical Research Methods
Yangjie Wei, JangEun Lee, Michael Dziegelewski, Michael S. Marlow, David B. Hayes
Summary: SLAMF1, a cell surface glycoprotein, is a potential target for inflammatory diseases. Research shows that the dimerization KD value for human SLAMF1 is 0.48μM and its self-association is driven by specific protein-protein interaction.
ANALYTICAL BIOCHEMISTRY
(2021)
Article
Chemistry, Physical
Helmut Coelfen
Summary: Analytical ultracentrifugation (AUC) is a classical polymer and colloid analysis technique invented by Theodor Svedberg 100 years ago. Modern advancements in hardware, software, and computing have expanded the possibilities of AUC beyond its original capabilities. New possibilities include high-resolution simultaneous characterization of particle size and optical property distributions, investigation of nucleation by reaction, characterization of particle interactions at high concentrations, and characterization of complex fluids or osmotic pressures over large concentration ranges. These topics demonstrate the untapped potential of AUC in colloid and polymer science even after 100 years of successful application.
COLLOID AND POLYMER SCIENCE
(2023)
Review
Medicine, Research & Experimental
Andreas L. Gimpel, Georgios Katsikis, Sha Sha, Andrew John Maloney, Moo Sun Hong, Tam N. T. Nguyen, Jacqueline Wolfrum, Stacy L. Springs, Anthony J. Sinskey, Scott R. Manalis, Paul W. Barone, Richard D. Braatz
Summary: The article introduces analytical methods for rAAV quality attributes, emphasizing the importance of rapid, high-throughput methods, which are not yet widely used in academic and industrial practice, and have limited supporting data.
MOLECULAR THERAPY-METHODS & CLINICAL DEVELOPMENT
(2021)
Article
Biology
Jong Il Ahn, Liang Zhang, Harsha Ravishankar, Lixin Fan, Klara Kirsch, Yan Zeng, Lingjun Meng, Jung-Eun Park, Hye-Yeoung Yun, Rodolfo Ghirlando, Buyong Ma, David Ball, Bonsu Ku, Ruth Nussinov, Jeremy D. Schmit, William F. Heinz, Seung Jun Kim, Tatiana Karpova, Yun-Xing Wang, Kyung S. Lee
Summary: Structural, biophysical, and imaging data demonstrate that self-assembly of the pericentrosomal proteins Cep63 and Cep152 is a stepwise and concentration-dependent process. Defects in this process disrupt proper centriole duplication mediated by Plk4. This study provides insights into the organization and function of pericentriolar materials (PCM) and offers a potential model for studying PCM-related diseases in other species.
COMMUNICATIONS BIOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Giuditta Guerrini, Dora Mehn, Francesco Fumagalli, Sabrina Gioria, Mattia Pedotti, Luca Simonelli, Filippo Bianchini, Davide F. Robbiani, Luca Varani, Luigi Calzolai
Summary: Analytical ultracentrifugation analysis revealed different conformations of the SARS-CoV-2 trimeric Spike protein in solution, with the relative abundance of open and close conformations being temperature-dependent and affected by storage temperature history. Neutralizing antibodies targeting specific domains have different effects on the protein conformations.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Chemistry, Multidisciplinary
X. Edward Zhou, Chad R. Schultz, Kelly Suino Powell, Amy Henrickson, Jared Lamp, Joseph S. Brunzelle, Borries Demeler, Irving E. Vega, Andre S. Bachmann, Karsten Melcher
Summary: Ornithine decarboxylase (ODC) is an enzyme involved in the synthesis of polyamines, and increased ODC activity is associated with cancer and neural over-proliferation. A partial loss-of-function variant, ODC G84R, has been found to be associated with intellectual disability and seizures. This variant may affect ODC activity through misregulation of proteasomal degradation rather than directly reducing its catalytic activity.
Article
Chemistry, Medicinal
Sho Fujiwara, Tsutomu Ueda, Naoki Ishii, Yoshihiko Abe, Kayoko Hayashihara-Kakuhou, Kimitoshi Takeda, Takaaki Kurinomaru, Ayano Fukuhara, Susumu Uchiyama, John F. Carpenter
Summary: This study compares the effects of different sterilization methods on drug solutions in polymer prefilled syringes (P-PFSs). Sterilization using ethylene oxide (EO) or vaporized hydrogen peroxide (VHP) results in the presence of these chemicals in the drug solutions, while sterilization with nitrogen dioxide (NO2) does not have this issue.
JOURNAL OF PHARMACEUTICAL SCIENCES
(2022)
Article
Chemistry, Medicinal
Salama Ramy, Yuki Ueda, Hiroyuki Nakajima, Miya Hiroi, Yoshiomi Hiroi, Tetsuo Torisu, Susumu Uchiyama
Summary: In this study, a polyionic hydrophilic complex polymer coating was applied to the surfaces of tools used in viral vector quantification analyses. The coating effectively decreased the adsorption of recombinant adeno-associated virus vectors, leading to efficient recovery of vector particles and higher transduction efficiency. This coating has the potential to be widely used in material processing in the gene therapy field.
JOURNAL OF PHARMACEUTICAL SCIENCES
(2022)
Article
Biochemistry & Molecular Biology
Yoshiko Nakagawa, Howard C-H Shen, Yusuke Komi, Shinju Sugiyama, Takaaki Kurinomaru, Yuri Tomabechi, Elena Krayukhina, Kenji Okamoto, Takeshi Yokoyama, Mikako Shirouzu, Susumu Uchiyama, Megumi Inaba, Tatsuya Niwa, Yasushi Sako, Hideki Taguchi, Motomasa Tanaka
Summary: This study established a robust in vitro reconstituted system of yeast prion propagation and found that Hsp104, Ssa1, and Sis1 chaperones are essential for efficient disaggregation of Sup35 amyloid. They also uncovered two distinct prion strain conformation-dependent modes of disaggregation, fragmentation, and dissolution.
NATURE CHEMICAL BIOLOGY
(2022)
Article
Cell Biology
Kana Hasegawa, Shunya Ikeda, Moto Yaga, Kouki Watanabe, Rika Urakawa, Akie Iehara, Mai Iwai, Seishin Hashiguchi, Soyoko Morimoto, Fumihiro Fujiki, Hiroko Nakajima, Jun Nakata, Sumiyuki Nishida, Akihiro Tsuboi, Yoshihiro Oka, Satoshi Yoshihara, Masahiro Manabe, Hiroyoshi Ichihara, Atsuko Mugitani, Yasutaka Aoyama, Takafumi Nakao, Asao Hirose, Masayuki Hino, Shiho Ueda, Katsuto Takenaka, Takashi Masuko, Koichi Akashi, Takahiro Maruno, Susumu Uchiyama, Shinji Takamatsu, Naoki Wada, Eiichi Morii, Shushi Nagamori, Daisuke Motooka, Yoshikatsu Kanai, Yusuke Oji, Tomoyoshi Nakagawa, Noriyuki Kijima, Haruhiko Kishima, Atsuyo Ikeda, Takayuki Ogino, Yasushi Shintani, Tateki Kubo, Emiko Mihara, Kosuke Yusa, Haruo Sugiyama, Junichi Takagi, Eiji Miyoshi, Atsushi Kumanogoh, Naoki Hosen
Summary: In this study, a monoclonal antibody (mAb) that specifically targets multiple myeloma (MM) cells by recognizing CD98 heavy chain (hc) was identified. The mAb, named R8H283, specifically bound to CD98hc in heterodimers but not monomers, leading to anti-MM effects without damaging normal hematopoietic cells. Furthermore, the study revealed the presence of a cancer-specific conformational epitope in a widely expressed protein, which can be found through extensive screening of primary human tumor samples.
SCIENCE TRANSLATIONAL MEDICINE
(2022)
Article
Medicine, Research & Experimental
Yuki Yamaguchi, Natsumi Wakaizumi, Mine Irisa, Takahiro Maruno, Mari Shimada, Koya Shintani, Haruka Nishiumi, Rina Yogo, Saeko Yanaka, Daisuke Higo, Tetsuo Torisu, Koichi Kato, Susumu Uchiyama
Summary: This study investigates the interaction between IgG and Fc gamma receptor IIIa (FcγRIIIa). The results show that the Fab of IgG facilitates the interaction by slowing dissociation and increasing enthalpy gain. The CL domain of Fab specifically interacts with the D1 and D2 domains of FcγRIIIa. Additionally, antigen binding plays a role in stabilizing the IgG-FcγRIIIa interactions.
Article
Multidisciplinary Sciences
Irmanida Batubara, Saadatul Husna, Mohamad Rafi, Tony Sumaryada, Susumu Uchiyama, Berry Juliandi, Sastia Prama Putri, Eiichiro Fukusaki
Summary: This study developed a rapid detection method for adulteration of Sappan wood using UV-Vis absorption spectra and chemometrics. By analyzing the absorption spectra of 13 samples and using principal component analysis and discriminant analysis, the study successfully classified adulterated and non-adulterated Sappan wood.
Article
Chemistry, Medicinal
Haruka Nishiumi, Natalie Deiringer, Nils Krause, Saki Yoneda, Tetsuo Torisu, Tim Menzen, Wolfgang Friess, Susumu Uchiyama
Summary: Subvisible particles (SVPs) are critical quality attributes in parenteral and ophthalmic products. Flow imaging microscopy (FIM) is an effective method for quantifying and classifying SVPs using particle images. This study compares three different FIM instruments in terms of size distribution and classification abilities for four types of SVPs.
JOURNAL OF PHARMACEUTICAL SCIENCES
(2022)
Article
Chemistry, Medicinal
Shinji Kizuki, Zekun Wang, Tetsuo Torisu, Satoru Yamauchi, Susumu Uchiyama
Summary: An increase in protein aggregates during transportation should be suppressed to avoid potential immunogenicity risks in therapeutic protein products. This study investigated the relationship between low g-force stresses and protein aggregate generation through exposing protein solutions to tri-axial vibration with various combinations of frequency and acceleration. The results showed that the number concentration of micron aggregates increased significantly within a specific range of acceleration and frequency, indicating a common threshold among different protein solutions.
JOURNAL OF PHARMACEUTICAL SCIENCES
(2023)
Article
Multidisciplinary Sciences
Hiroya Oki, Kazuki Kawahara, Minato Iimori, Yuka Imoto, Haruka Nishiumi, Takahiro Maruno, Susumu Uchiyama, Yuki Muroga, Akihiro Yoshida, Takuya Yoshida, Tadayasu Ohkubo, Shigeaki Matsuda, Tetsuya Iida, Shota Nakamura
Summary: Colonization is a crucial step in Vibrio cholerae infection. The interaction between the minor pilin and the secreted protein plays a key role in this process, and it could be a potential therapeutic target.
Article
Chemistry, Medicinal
Kimitoshi Takeda, Masanori Noda, Takahiro Maruno, Susumu Uchiyama
Summary: Mass photometry (MP) is a label-free, single-molecule technique that can determine molecular mass distribution with low sample consumption and short time. The strict optical settings are crucial for accurate estimation of high-molecular mass samples. This study emphasizes the critical calibration of the mass photometer and presents a method for optimizing instrument settings.
JOURNAL OF PHARMACEUTICAL SCIENCES
(2023)
Article
Nutrition & Dietetics
Takuya Yamane, Momoko Imai, Takeshi Bamba, Susumu Uchiyama
Summary: This study aimed to determine the effects of daily NMN ingestion on plasma levels of NMN and NAD+. The results showed that oral administration of NMN increased the plasma concentrations of NMN and NAD+, as well as postprandial serum insulin levels. However, the elevation levels varied among individuals. No adverse symptoms were observed in the participants.
CLINICAL NUTRITION ESPEN
(2023)
Article
Pharmacology & Pharmacy
Takuya Shimomura, Mitsuhiro Sekiguchi, Reisa Honda, Miki Yamazaki, Masami Yokoyama, Susumu Uchiyama
Summary: Understanding the physicochemical properties of monoclonal antibodies (MAbs) early in drug discovery is crucial for determining their developability. This study measured the viscosity and diffusion interaction coefficient (kDiff) of three MAbs under various formulation conditions and identified key factors that influence concentration-dependent viscosity. The results showed that viscosity increased exponentially at high concentrations and could be predicted from kDiff. Computational analysis revealed that the presence of a large negative charge in the complementarity determining region (CDR) was a major factor underlying differences in concentration-dependent curves among the MAbs and formulation conditions.
BIOLOGICAL & PHARMACEUTICAL BULLETIN
(2022)
Meeting Abstract
Biotechnology & Applied Microbiology
Takahiro Maruno, Kaede Usami, Kentaro Ishii, Tetsuo Torisu, Susumu Uchiyama
Meeting Abstract
Biotechnology & Applied Microbiology
Susumu Uchiyama