Article
Biology
Atefeh Ghorbani, S. Javad Khataeipour, Monica H. Solbakken, David N. G. Huebert, Minasadat Khoddami, Khalil Eslamloo, Cassandra Collins, Tiago Hori, Sissel Jentoft, Matthew L. Rise, Mani Larijani
Summary: Research has found that in certain fish species, the important enzyme AID is either inactive or lacks catalytic activity, indicating that secondary antibody diversification is not absolutely conserved in all jawed vertebrates. The inactivation of AID in fish may be an immune adaptation strategy evolved due to their unique reproductive behaviors.
Article
Chemistry, Multidisciplinary
Ana Diaz-Fernandez, Simona Ranallo, Francesco Ricci
Summary: We have developed a method, called Enzyme-Linked DNA Displacement (ELIDIS), for the electrochemical ultrasensitive detection of antibodies. ELIDIS combines the programmability and versatility of DNA-based systems with the sensitivity provided by enzymatic amplification. It has been shown to be sensitive, specific, and efficient in detecting multiple antibodies in complex media, making it a promising platform for point-of-care antibody detection.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2023)
Review
Chemistry, Analytical
Noemi Colozza, Veronica Caratelli, Danila Moscone, Fabiana Arduini
Summary: In the past decade, paper-based electrochemical biosensors have gained attention for their unique advantages and sustainability vision, offering features like solution flow management, reagent storage, and gas phase analyte detection. The foldability of paper has been utilized to design 3D multifarious biosensors, enhancing the development of self-powered devices and expanding the possibilities for smart and sustainable analytical tools.
Article
Biotechnology & Applied Microbiology
Kelly M. Zatopek, Samantha L. Fossa, Katharina Bilotti, Paul J. Caffrey, Lea Chuzel, Alexandra M. Gehring, Gregory J. S. Lohman, Christopher H. Taron, Andrew F. Gardner
Summary: This study presents a rapid, simple, high-throughput method to discover novel archaeal nucleic acid modifying enzymes by utilizing a fosmid genomic library, next-generation sequencing, and capillary electrophoresis. The methodology described provides a fast and efficient way to explore the T. kodakarensis genome for a variety of nucleic acid modifying activities and may have implications for similar exploration of enzymes and pathways in other Archaea.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2022)
Review
Biotechnology & Applied Microbiology
Paula Matos de Brito, Andreia Saruga, Miguel Cardoso, Joao Goncalves
Summary: Antibodies are essential components of the adaptive immune system with rapidly growing therapeutic applications. Various platforms in higher eukaryotic cells have been developed to overcome limitations and replicate antibody diversification mechanisms. The latest strategies aim to mimic both naive and affinity-maturated antibody repertoires.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2021)
Article
Chemistry, Physical
Shobhit S. Chaturvedi, Rajeev Ramanan, Jian Hu, Robert P. Hausinger, Christo Z. Christov
Summary: The reaction of the ethylene-forming enzyme is influenced by the conformation of L-Arg and the coordination mode of 2OG, determining whether the reaction proceeds towards ethylene formation or L-Arg hydroxylation.
Article
Chemistry, Physical
Sodiq O. Waheed, Shobhit S. Chaturvedi, Tatyana G. Karabencheva-Christova, Christo Z. Christov
Summary: The study explored the catalytic mechanism and effects of mutations on TET2 enzyme using molecular dynamics and quantum mechanics, revealing the key role of conformational dynamics and the impact of mutations on the hydrogen atom abstraction step. Notably, mutations were found to significantly alter the electric fields and electron transfer mechanisms, influencing the reactivity of TET2 mutant forms.
Article
Biochemistry & Molecular Biology
Diego Carballares, Javier Rocha-Martin, Roberto Fernandez-Lafuente
Summary: By chemically aminating immobilized TLL, Lecitase can be ionically exchanged and released from the biocatalyst, allowing the utilization of the fully active TLL to build a new combibiocatalyst. However, the release of Lecitase is not possible using high ionic strength solutions alone, requiring the use of octyl-vinylsulfone supports for irreversible immobilization of TLL.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2022)
Review
Biochemistry & Molecular Biology
Diego Carballares, Roberto Morellon-Sterling, Roberto Fernandez-Lafuente
Summary: This review covers the different possibilities of utilizing enzymes with multiple catalytic activities for cascade reactions. It discusses enzymes with promiscuous activities, fusion enzymes, enzymes combined with metal catalysts, enzymes with non-canonical amino acids and metal catalysts, as well as the design of enzymes with a second biological active center through enzyme modeling and directed mutagenesis. It also highlights the challenges related to balancing catalytic activities and operational stabilities. The design of new multi-activity enzymes shows great potential in establishing new combo-catalysis routes.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Chemistry, Analytical
Charles Blanluet, Diego A. Huyke, Ashwin Ramachandran, Alexandre S. Avaro, Juan G. Santiago
Summary: This study demonstrates that endpoint-based assays in CRISPR-Cas12 detection are limited by experimental choices and work best for known target concentrations. It also reveals that SNP activation results in measurable changes in the kinetic parameters of Cas12 trans-cleavage. To overcome the limitations of endpoint-based assays, the researchers developed a new assay based on the quantification of Michaelis-Menten parameters.
ANALYTICAL CHEMISTRY
(2022)
Article
Food Science & Technology
Xu He, Luyao Chen, Yijing Pu, Hongxuan Wang, Jiankang Cao, Weibo Jiang
Summary: Pancreatic lipase and cholesterol esterase are key enzymes in lipid digestion and absorption, and can be controlled in response to obesity and other lipid metabolism disorders. Fruit and vegetable polyphenols have been shown to inhibit the activities of these enzymes, and this review explores the mechanisms of polyphenol-enzyme interactions and factors that may affect the inhibitory activity. The findings aim to advance related research and facilitate the practical application of these achievements.
Review
Genetics & Heredity
Riccardo Pecori, Salvatore Di Giorgio, J. Paulo Lorenzo, F. Nina Papavasiliou
Summary: The AID/APOBEC polynucleotide cytidine deaminases have diverse functions as both DNA mutators and RNA editors, and their strict functional classification needs to be reconsidered. Understanding the structural differences and similarities between these enzymes will contribute to improving the design of programmable base editors for therapeutic purposes.
NATURE REVIEWS GENETICS
(2022)
Review
Biochemistry & Molecular Biology
Vijay Jayaraman, Saacnicteh Toledo-Patino, Lianet Noda-Garcia, Paola Laurino
Summary: This review provides a brief integrated view of key mechanistic aspects of protein evolution, including the driving forces of genetic mutations and selection for function, as well as the impact of protein variability and plasticity-first mechanisms. It also highlights open questions in the field of protein evolution.
Article
Biophysics
Seungkeun Kim, Al-Monsur Jiaul Haque, Kyungmin Ahn, Youngho Wee, Hyojin Hwang, Yoon Huh, Joona Bang, Jeongkwon Kim, Jungbae Kim
Summary: By embedding ferrocene in a crosslinked polymer network nanogel, the stability and electron conductivity of enzymes can be improved, making it suitable for highly sensitive detection of glucose. The resulting Fc-ATRP-SEG electrode exhibits excellent performance and long-term stability.
BIOSENSORS & BIOELECTRONICS
(2022)
Article
Chemistry, Multidisciplinary
Mohamad Zandieh, Juewen Liu
Summary: Nanozyme refers to various catalysts, including immobilized inorganic metal complexes, immobilized enzymes, and inorganic nanoparticles. This article provides a detailed history of nanozymes and categorizes them into two types. The definition of nanozymes is evolving and can cover most claimed nanozymes based on the same substrates and products as enzymes, although with different mechanisms. A broader definition can inspire application-based research using nanomaterials for analytical, environmental, and biomedical purposes. Understanding the catalytic mechanism of nanozymes is crucial for further engineering of active sites, and the future perspective of the nanozyme field is discussed.
ADVANCED MATERIALS
(2023)
Article
Oncology
Miho Tanaka, Jason H. Fine, Christina L. Kirkham, Oscar A. Aguilar, Antoaneta Belcheva, Alberto Martin, Troy Ketela, Jason Moffat, David S. J. Allan, James R. Carlyle
Article
Hematology
Blerta Green, Alberto Martin, Antoaneta Belcheva
EXPERIMENTAL HEMATOLOGY
(2018)
Article
Immunology
Georgina Galicia, Dennis S. W. Lee, Valeria Ramaglia, Lesley A. Ward, Jennifer Y. Yam, Leslie Y. T. Leung, Rui Li, Marcus Handy, Junxian Zhang, Paulina C. Drohomyrecky, Eric Lancaster, Amit Bar-Or, Alberto Martin, Jennifer L. Gommerman
JOURNAL OF IMMUNOLOGY
(2018)
Article
Multidisciplinary Sciences
Alexanda K. Ling, Clare C. So, Michael X. Le, Audrey Y. Chen, Lisa Hung, Alberto Martin
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2018)
Article
Multidisciplinary Sciences
Conglei Li, Thergiory Irrazabal, Clare C. So, Maribel Berru, Likun Du, Evelyn Lam, Alexanda K. Ling, Jennifer L. Gommerman, Qiang Pan-Hammarstrom, Alberto Martin
NATURE COMMUNICATIONS
(2018)
Article
Multidisciplinary Sciences
Sylvie M. Noordermeer, Salome Adam, Dheva Setiaputra, Marco Barazas, Stephen J. Pettitt, Alexanda K. Ling, Michele Olivieri, Alejandro Alvarez-Quilon, Nathalie Moatti, Michal Zimmermann, Stefano Annunziato, Dragomir B. Krastev, Feifei Song, Inger Brandsma, Jessica Frankum, Rachel Brough, Alana Sherker, Sebastien Landry, Rachel K. Szilard, Meagan M. Munro, Andrea McEwan, Theo Goullet de Rugy, Zhen-Yuan Lin, Traver Hart, Jason Moffat, Anne-Claude Gingras, Alberto Martin, Haico van Attikum, Jos Jonkers, Christopher J. Lord, Sven Rottenberg, Daniel Durocher
Article
Biochemistry & Molecular Biology
Clare C. So, Shaliny Ramachandran, Alberto Martin
MOLECULAR AND CELLULAR BIOLOGY
(2019)
Editorial Material
Immunology
Rajeev M. Nepal, Alberto Martin
JOURNAL OF IMMUNOLOGY
(2019)
Editorial Material
Biochemistry & Molecular Biology
Bhupesh K. Thakur, Yann Malaise, Alberto Martin
Article
Genetics & Heredity
Clare C. So, Alberto Martin
Article
Biochemistry & Molecular Biology
Alexanda K. Ling, Meagan Munro, Natasha Chaudhary, Conglei Li, Maribel Berru, Brendan Wu, Daniel Durocher, Alberto Martin
Review
Gastroenterology & Hepatology
Thergiory Irrazabal, Bhupesh K. Thakur, Kenneth Croitoru, Alberto Martin
Summary: Patients with inflammatory bowel disease have increased oxidative damage, potentially leading to colon cancer, while exogenous antioxidant molecules can reduce intestinal oxidation and prevent these cancers from developing.
CELLULAR AND MOLECULAR GASTROENTEROLOGY AND HEPATOLOGY
(2021)
Review
Fisheries
A. Muthupandian, D. Waly, B. G. Magor
Summary: This study discusses the evidence for antibody affinity maturation and somatic hypermutation in ectotherms, suggesting that fish melanomacrophage clusters may serve as functional sites analogous to germinal centers. Further research in zebrafish can help validate these predictions, with implications for vaccine use in aquaculture and antibody affinity maturation processes in all ectothermic vertebrates.
DEVELOPMENTAL AND COMPARATIVE IMMUNOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Alexanda K. Ling, Meagan Munro, Natasha Chaudhary, Conglei Li, Maribel Berru, Brendan Wu, Daniel Durocher, Alberto Martin
Review
Gastroenterology & Hepatology
Rossanna C. Pezo, Matthew Wong, Alberto Martin
THERAPEUTIC ADVANCES IN GASTROENTEROLOGY
(2019)