Review
Food Science & Technology
Laura M. Carroll, Rachel A. Cheng, Martin Wiedmann, Jasna Kovac
Summary: The Bacillus cereus group, also known as B. cereus sensu lato (s.l.), is a complex species containing multiple closely related lineages with varying pathogenic abilities. Taxonomic classification of these organisms is challenging due to conflicting changes proposed over the years. This review discusses the nomenclatural changes in the taxonomic space of B. cereus s.l., outlines contemporary taxonomic frameworks, and offers suggestions to avoid ambiguities in classification. Future directions and open problems in the taxonomic realm are also discussed.
CRITICAL REVIEWS IN FOOD SCIENCE AND NUTRITION
(2022)
Article
Biochemistry & Molecular Biology
Maria-Armineh Tossounian, Maria Baczynska, William Dalton, Sew Yeu Peak-Chew, Kipras Undzenas, George Korza, Valeriy Filonenko, Mark Skehel, Peter Setlow, Ivan Gout
Summary: Coenzyme A (CoA) plays a critical role in cellular metabolism and gene expression regulation. It has been discovered to have an antioxidant function through protein CoAlation, where it forms a mixed disulfide bond with cysteine residues of proteins. This study focuses on the deCoAlation activity of YtpP and TrxA enzymes, which were found to remove CoA from various substrates. The findings provide insights into the CoA-mediated redox regulation of CoAlated proteins under different cellular stress conditions.
Article
Pharmacology & Pharmacy
Faiza Islam, Kevin K. Leung, Matthew D. Walker, Shahed Al Massri, Brian H. Shilton
Summary: Through an evolutionary analysis, we found that the cellular functions of Human Quinone Reductase 2 (NQO2) are still unknown. NQO2 shows variations in substrate utilization efficiency and catalytic activity across different species.
FRONTIERS IN PHARMACOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Zhishang Zhang, Wenqing Li, Haorui Wu, Zhuangfeng Liu, Huaiyi Huang
Summary: In this study, three cationic photosensitizers were synthesized and showed strong antimicrobial and antibiofilm activities against gram-positive Staphylococcus aureus. Mechanistic study revealed that the photosensitizers caused membrane damage, leading to protein and nucleic acid leakage.
BIOORGANIC CHEMISTRY
(2023)
Article
Multidisciplinary Sciences
Marc M. Dwenger, Sean M. Raph, Michelle L. Reyzer, M. Lisa Manier, Daniel W. Riggs, Zachary B. Wohl, Vahagn Ohanyan, Gregory Mack, Thomas Pucci, Joseph B. Moore, Bradford G. Hill, William M. Chilian, Richard M. Caprioli, Aruni Bhatnagar, Matthew A. Nystoriak
Summary: Adequate oxygen delivery to the heart is crucial for its function under stress. This study reveals that increased oxygen demand alters the redox state of a substance in the blood, which in turn affects coronary vasodilation and myocardial blood flow. In addition, the study identifies an enzyme activity that is associated with oxygen demand and regulates coronary reactivity and myocardial blood flow.
NATURE COMMUNICATIONS
(2022)
Article
Biotechnology & Applied Microbiology
Aleksander S. Reshetnikov, Sergey Y. But, Olga N. Rozova, Ildar I. Mustakhimov, Valentina N. Khmelenina
Summary: In the study of altering the cofactor specificity of acrylyl-CoA reductase, several amino acid substitutions that decreased activity while preserving specificity to NADH were identified.
BIOTECHNOLOGY LETTERS
(2021)
Article
Biochemistry & Molecular Biology
Anna V. Izosimova, Marina V. Shirmanova, Vladislav I. Shcheslavskiy, Daria A. Sachkova, Artem M. Mozherov, George V. Sharonov, Elena V. Zagaynova, Diana V. Yuzhakova
Summary: FLIM technology can be used to assess the immune response and metabolic changes of T-cells to tumors. The study found that the fluorescence lifetime parameters of NAD(P)H in lymph nodes are sensitive to tumor development. This research provides a powerful tool for evaluating the immune response to tumor development.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemistry & Molecular Biology
Seiya Watanabe, Kentaroh Yoshiwara, Ryo Matsubara, Yasunori Watanabe
Summary: In this study, the crystal structure of a SDR-type AraDH was reported for the first time, revealing its specific interactions with NAD+ and the binding mode of the substrate.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2022)
Editorial Material
Biochemistry & Molecular Biology
Kazuhiko Yamasaki
Summary: Singh et al. present the three-dimensional structure and biochemical properties of a novel OYE enzyme from a necrotrophic fungus, which is of importance for understanding its catalytic mechanism.
Article
Biochemistry & Molecular Biology
Sergey Pisarenko, Eugene Eremenko, Dmitry A. Kovalev, Alla G. Ryazanova, Anna Yu Evchenko, Lyudmila Yu Aksenova, Zorigma F. Dugarzhapova, Elena Kravets, Olga Semenova, Olga Bobrysheva, Sergei Balakhonov, Alexander N. Kulichenko
Summary: This research conducted whole genome SNP analysis on 15 strains of Bacillus anthracis isolated from Eastern Siberia and the Far East from 1956 to 2018. The study identified 6400 chromosomal SNPs, allowing for differentiation of the strains and establishing genetic diversity among them. The strains from this region were classified into 5 genetic groups, with the greatest diversity observed in the southern regions of Eastern Siberia.
MOLECULAR PHYLOGENETICS AND EVOLUTION
(2021)
Article
Microbiology
Jiyu Liang, Haiyan Huang, Yubo Wang, Lexin Li, Jihong Yi, Shuning Wang
Summary: Thermotoga maritima is an anaerobic hyperthermophilic bacterium that efficiently produces H-2 by fermenting carbohydrates. The mechanism of sulfur reduction in T. maritima has not been fully understood. In this study, a cytoplasmic NAD(P)H-dependent polysulfide reductase (NSR) from T. maritima was identified and characterized. NSR exhibited S-0, polysulfide, and thiosulfate reduction activities and its expression was upregulated in S-0- or thiosulfate-containing medium. The putative membrane-bound proteins MBX and Rnf may also play a role in the metabolism of T. maritima. These findings highlight the importance of NSR homologs in the sulfur cycle of geothermal environments.
MICROBIOLOGY SPECTRUM
(2022)
Article
Microbiology
Giuseppe Forlani, Giuseppe Sabbioni, Milosz Ruszkowski
Summary: The structure and properties of P5C reductase in Saccharomyces cerevisiae were studied, and it was found that it may preferentially use NADH as the electron donor. The analysis of its structure also suggested possible binding sites for arginine and anions.
Article
Multidisciplinary Sciences
Victoria V. Firstova, Anastasia S. Shakhova, Alena K. Riabko, Marina Silkina, Natalia A. Zeninskaya, Yana O. Romanenko, Maksim A. Marin, Methun M. Rogozin, Alena S. Kartseva, Ivan A. Dyatlov, Igor G. Shemyakin
Summary: The research studied the duration of antibodies specific to spores, protective antigen (PA), and lethal factor (LF) in the blood of donors after immunization with live anthrax vaccine. Antibodies against PA-D1 were found to circulate for over 1 year, while antibodies against LF and PA-D4 appeared after 11 months. Moderate positive correlation was observed between antibody titers and toxin neutralization activity in the blood serum samples.
Article
Biotechnology & Applied Microbiology
Sang-Jeong Bae, Sujin Kim, Hyun June Park, Joonwon Kim, Hyunbin Jin, Byung-gee Kim, Ji-Sook Hahn
Summary: The study achieved an increase in acetoin production through adaptive laboratory evolution and elimination of byproducts. By identifying Ora1, Ypr1, and Ara1 as contributors to byproduct formation, further optimization of (R)-acetoin production was achieved.
METABOLIC ENGINEERING
(2021)
Article
Biology
Sucharita Bose, C. Nicklaus Steussy, Daneli Lopez-Perez, Tim Schmidt, Samadhi C. Kulathunga, Mohamed N. Seleem, Mark Lipton, Andrew D. Mesecar, Victor W. Rodwell, Cynthia V. Stauffacher
Summary: This study identified a non-statin inhibitor of bacterial HMG-CoA reductase, which can be used as a target for the development of novel antibiotics. Through high-throughput in vitro screening and crystal structure analysis, the researchers discovered unique features of the efHMGR enzyme and its interaction with the inhibitor. Importantly, the inhibitor selectively targets bacterial HMGR without inhibiting the human enzyme.
COMMUNICATIONS BIOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Jamie R. Wallen, T. Conn Mallett, Takashi Okuno, Derek Parsonage, Hiroaki Sakai, Tomitake Tsukihara, Al Claiborne
Article
Biochemical Research Methods
K. Diederichs, P. A. Karplus
ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY
(2013)
Review
Biochemistry & Molecular Biology
Andrea Hall, Kimberly Nelson, Leslie B. Poole, P. Andrew Karplus
ANTIOXIDANTS & REDOX SIGNALING
(2011)
Review
Biochemistry & Molecular Biology
Michael C. Gretes, Leslie B. Poole, P. Andrew Karplus
ANTIOXIDANTS & REDOX SIGNALING
(2012)
Article
Biochemistry & Molecular Biology
Arden Perkins, Michael C. Gretes, Kimberly J. Nelson, Leslie B. Poole, P. Andrew Karplus
Article
Biochemistry & Molecular Biology
Arden Perkins, Kimberly J. Nelson, Jared R. Williams, Derek Parsonage, Leslie B. Poole, P. Andrew Karplus
Article
Biochemistry & Molecular Biology
Richard B. Cooley, Jessica L. Feldman, Camden M. Driggers, Taylor A. Bundy, Audrey L. Stokes, P. Andrew Karplus, Ryan A. Mehl
Letter
Cell Biology
Ifat Sher, C. Oliver Hanemann, P. Andrew Karplus, Anthony Bretscher
DEVELOPMENTAL CELL
(2012)
Article
Biochemistry & Molecular Biology
Scott A. Hollingsworth, Matthew C. Lewis, Donald S. Berkholz, Weng-Keen Wong, P. Andrew Karplus
JOURNAL OF MOLECULAR BIOLOGY
(2012)
Article
Biochemistry & Molecular Biology
Camden M. Driggers, Richard B. Cooley, Banumathi Sankaran, Lawrence L. Hirschberger, Martha H. Stipanuk, P. Andrew Karplus
JOURNAL OF MOLECULAR BIOLOGY
(2013)
Editorial Material
Biochemistry & Molecular Biology
P. Andrew Karplus, Leslie B. Poole
Article
Multidisciplinary Sciences
Donald S. Berkholz, Camden M. Driggers, Maxim V. Shapovalov, Roland L. Dunbrack, P. Andrew Karplus
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2012)
Article
Biochemistry & Molecular Biology
Michael C. Gretes, P. Andrew Karplus
Article
Multidisciplinary Sciences
P. Andrew Karplus, Kay Diederichs
Article
Microbiology
Abigail M. Debrine, P. Andrew Karplus, Daniel D. Rockey
Summary: Polymorphic membrane proteins (Pmps) are crucial cell surface proteins in Chlamydia, which play important roles in host-microbe interactions. The structure of Pmps, revealed by AlphaFold predictions, shows distinct beta-helical parts with motifs that can interact with ligands involved in infection. This structural study provides guidance for further investigation on the infection mechanism.
MICROBIOLOGY SPECTRUM
(2023)