Article
Multidisciplinary Sciences
Quan Liu, Heming Wang, He Zhang, Liyan Sui, Letian Li, Wang Xu, Shouwen Du, Pengfei Hao, Yuhang Jiang, Jing Chen, Xiaoyun Qu, Mingyao Tian, Yinghua Zhao, Xuerui Guo, Xingye Wang, Wu Song, Guangqi Song, Zhengkai Wei, Zhijun Hou, Guoqing Wang, Minhua Sun, Xiao Li, Huijun Lu, Xinyu Zhuang, Ningyi Jin, Yicheng Zhao, Chang Li, Ming Liao
Summary: This study analyzed succinylproteomics of SARS-CoV-2 infection using quantitative mass spectrometry, revealing significant changes in succinylation on host and viral proteins. SARS-CoV-2 infection promotes succinylation of key enzymes in the TCA, leading to inhibition of cellular metabolic pathways. The viral nonstructural protein NSP14 regulates host protein succinylation through interaction with SIRT5, and succinylation inhibitors show antiviral effects. Succinylation modification is also observed on SARS-CoV-2 nucleocapsid and membrane proteins, as well as its variants.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Review
Chemistry, Medicinal
Barbara Farkas, Marco Minneci, Matas Misevicius, Isabel Rozas
Summary: This review provides an overview of the main protease of SARS-CoV-2 (M-Pro) and the host transmembrane protease serine 2 (TMPRSS2), which play important roles in the infection of SARS-CoV-2. The relevance of these proteases is identified by summarizing the viral replication cycle. Approved therapeutic agents and recently reported inhibitors for M-Pro and TMPRSS2 are discussed, along with computational approaches for designing novel inhibitors. Dual-action inhibitors for both proteases are also mentioned. This review highlights the importance of targeting these proteases for the development of antiviral agents against COVID-19.
Article
Microbiology
Bin Gao, Shunyi Zhu
Summary: This study reports the discovery of a fungal binder called micasin that can bind to the receptor-binding domain (RBD) of the novel coronavirus and shows that its binding affinity can be significantly improved through mutation. This highlights the potential of naturally occurring fungal defensins as a valuable resource for developing antiviral agents for COVID-19.
Letter
Biochemistry & Molecular Biology
Xu Pan, Xin Li, Shangwei Ning, Hui Zhi
Summary: This study systematically analyzed the transcription levels of SARS-CoV-2 genes and identified responsive human genes associated with virus infection. Various networks were constructed to discover potential antiviral targets, and several potential drugs for COVID-19 treatment were recognized, with proteasome inhibitors playing a crucial role. These results provide new insights into the functional genomics of SARS-CoV-2 and host-targeting antiviral strategies for infection.
CELL AND BIOSCIENCE
(2021)
Review
Biochemistry & Molecular Biology
Ridhima Kaul, Pradipta Paul, Sanjay Kumar, Dietrich Buesselberg, Vivek Dhar Dwivedi, Ali Chaari
Summary: This review summarizes the activities and structure-activity relationships of flavonoids in combating SARS-CoV-2 from in vitro studies to clinical research. The study found that flavonoids such as quercetin and myricetin derivatives, baicalein, baicalin, EGCG, and tannic acid show promising activities against SARS-CoV-2.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Biochemistry & Molecular Biology
Faizul Azam, Ismail M. Taban, Eltayeb E. M. Eid, Muzaffar Iqbal, Ozair Alam, Shamshir Khan, Danish Mahmood, Md Jamir Anwar, Habibullah Khalilullah, M. U. Khan
Summary: This study investigates the interaction between ivermectin and COVID-19 targets as well as IMP alpha through molecular docking and molecular dynamics simulation. The results show that ivermectin has a strong affinity for the non-structural protein 9 of the virus and moderate affinity for IMP alpha.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2022)
Review
Chemistry, Medicinal
Lara Alzyoud, Mohammad A. Ghattas, Noor Atatreh
Summary: This review paper provides a detailed insight into the potential of Mpro allosteric sites as drug targets for the treatment of COVID-19, as well as experimental and computational attempts to discover new allosteric inhibitors.
DRUG DESIGN DEVELOPMENT AND THERAPY
(2022)
Article
Microbiology
Seri Jo, Suwon Kim, Jahyun Yoo, Mi-Sun Kim, Dong Hae Shin
Summary: The outbreak of COVID-19 caused chaos worldwide, leading to the urgent need for treatments. Drug-repurposing approach is a rapid strategy in developing treatments for COVID-19. Research showed that certain antiviral agents and phosphodiesterase type 5 inhibitors demonstrated good inhibitory effects on the protease function of the virus.
Review
Immunology
Georgina Lopez-Cortes, Miryam Palacios-Perez, Margarita M. Hernandez-Aguilar, Hannya F. Velediaz, Marco Jose
Summary: Coronaviruses use their spike proteins to interact with protein or carbohydrate receptors and infect cells. Three known protein receptors, ANPEP/CD13, DPP IV/CD26, and ACE2, play important roles in the infection of human coronaviruses. These receptors are involved in various physiological processes and expressed in different tissues/cell types. Understanding the commonalities and functions of these enzymes, as well as their impact on systemic deregulations and multi-organ failures, is crucial for developing effective medications against coronaviruses.
Review
Biochemistry & Molecular Biology
Nikola Gligorijevic, Mirjana Radomirovic, Olgica Nedic, Marija Stojadinovic, Urmila Khulal, Dragana Stanic-Vucinic, Tanja Cirkovic Velickovic
Summary: The global outbreak of COVID-19 caused by SARS-CoV-2 has led to numerous clinical trials investigating the potential of polyphenols in prevention and treatment, providing a solid basis for developing polyphenol-based natural approaches for preventing and treating COVID-19.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Review
Biochemistry & Molecular Biology
Yungang Lan, Wenqi He, Gaili Wang, Zhenzhen Wang, Yuzhu Chen, Feng Gao, Deguang Song
Summary: This review summarizes the experimental evidence demonstrating the correlation between lysosomal function and SARS-CoV-2 replication, and the development of lysosomal perturbation drugs as anti-SARS-CoV-2 agents.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemistry & Molecular Biology
Kuoyuan Cheng, Laura Martin-Sancho, Lipika R. Pal, Yuan Pu, Laura Riva, Xin Yin, Sanju Sinha, Nishanth Ulhas Nair, Sumit K. Chanda, Eytan Ruppin
Summary: The study utilized genome-scale metabolic modeling to analyze host metabolism changes during SARS-CoV-2 infection, predicted anti-viral targets, validated these targets using drug and genetic screening data, and provided potential anti-SARS-CoV-2 targets supported by clinical data for future evaluation.
MOLECULAR SYSTEMS BIOLOGY
(2021)
Article
Virology
Irina Leneva, Nadezhda Kartashova, Artem Poromov, Anastasiia Gracheva, Ekaterina Korchevaya, Ekaterina Glubokova, Olga Borisova, Anna Shtro, Svetlana Loginova, Veronika Shchukina, Ravil Khamitov, Evgeny Faizuloev
Summary: Umifenovir, an antiviral drug with broad spectrum activity, has shown inhibitory effects against different viruses including seasonal coronaviruses and SARS-CoV-2. It could be a valuable asset in the fight against COVID-19, especially in the early stages of a viral pandemic.
Article
Biochemical Research Methods
Ali F. Alsulami, Sherine E. Thomas, Arian R. Jamasb, Christopher A. Beaudoin, Ismail Moghul, Bridget Bannerman, Liviu Copoiu, Sundeep Chaitanya Vedithi, Pedro Torres, Tom L. Blundell
Summary: Since the release of the SARS-CoV-2 genome sequence, there has been a global focus on developing target-based drug discovery, involving the creation of 3D models covering 97.5% of the proteome. These models and predictions, stored in a comprehensive database called SARS CoV-2 3D, are freely available for download, providing crucial information for drug discovery and therapeutic design.
BRIEFINGS IN BIOINFORMATICS
(2021)
Article
Multidisciplinary Sciences
Katherine U. U. Gaynor, Marina Vaysburd, Maximilian A. J. Harman, Anna Albecka, Phillip Jeffrey, Paul Beswick, Guido Papa, Liuhong Chen, Donna Mallery, Brian McGuinness, Katerine Van Rietschoten, Steven Stanway, Paul Brear, Aleksei Lulla, Katarzyna Ciazynska, Veronica T. T. Chang, Jo Sharp, Megan Neary, Helen Box, Jo Herriott, Edyta Kijak, Lee Tatham, Eleanor G. G. Bentley, Parul Sharma, Adam Kirby, Ximeng Han, James P. P. Stewart, Andrew Owen, John A. G. Briggs, Marko Hyvonen, Michael J. J. Skynner, Leo C. C. James
Summary: The study presents the development of bicyclic peptides that combine the advantages of neutralizing antibodies and small molecule inhibitors, showing their antiviral capacity against SARS-CoV-2. This introduces a potential new antiviral modality to tackle new and rapidly evolving viruses.
NATURE COMMUNICATIONS
(2023)
Article
Plant Sciences
Antonella Gradogna, Joachim Scholz-Starke, Jose M. Pardo, Armando Carpaneto
Summary: This study combined patch-clamp technique with ratiometric fluorescence imaging to detect NHX antiport activity-induced acidification in Arabidopsis mesophyll vacuoles. NHX activity was specifically impaired by the low-abundance signaling lipid PI(3,5)P-2, which may regulate salt accumulation in plants by coordinately shutting down secondary active carriers responsible for cation and anion uptake inside the vacuole.
Editorial Material
Pharmacology & Pharmacy
Nicola Clementi, Carolina Scagnolari, Antonella D'Amore, Fioretta Palombi, Elena Criscuolo, Federica Frasca, Alessandra Pierangeli, Nicasio Mancini, Guido Antonelli, Massimo Clementi, Armando Carpaneto, Antonio Filippini
PHARMACOLOGICAL RESEARCH
(2021)
Review
Biochemistry & Molecular Biology
Azadeh Montaseri, Claudia Giampietri, Michela Rossi, Anna Riccioli, Andrea Del Fattore, Antonio Filippini
Review
Biochemistry & Molecular Biology
Antonio Filippini, Alessio D'Alessio
Article
Chemistry, Multidisciplinary
Giulia Ricci, Alessandra Cucina, Sara Proietti, Simona Dinicola, Francesca Ferranti, Marcella Cammarota, Antonio Filippini, Mariano Bizzarri, Angela Catizone
Summary: Studies show that under the influence of microgravity, HaCaT cells recover an epithelial phenotype by readjusting cell-cell and cell-matrix interactions, reversing the acquired mesenchymal phenotype. The transient nature of cytoskeletal changes during the first period of weightlessness is followed by adaptive modifications through which cells regain their normal characteristics.
APPLIED SCIENCES-BASEL
(2021)
Review
Cell Biology
Antonella D'Amore, Antonella Gradogna, Fioretta Palombi, Velia Minicozzi, Matteo Ceccarelli, Armando Carpaneto, Antonio Filippini
Summary: Naringenin, a flavonoid found in citrus fruits and tomatoes, has been identified as a blocker of the two-pore channel (TPC) family, which has a role in various diseases. It has been shown to impair new blood vessel formation in solid tumors by specifically targeting TPC activity. The inhibition of TPC by naringenin could be an effective pharmacological strategy in combating the COVID-19 pandemic.
Article
Neurosciences
Filippo Biamonte, Gigliola Sica, Antonio Filippini, Alessio D'Alessio
Summary: Glioblastoma (GBM) is a highly aggressive form of brain cancer with cancer stem cells (CSCs) playing a role in resistance against common treatments. Reelin, a large secreted glycoprotein, is found to be highly expressed in GBM and may potentially regulate the behavior of GBM cancer stem cells, making it a potential target for GBM treatment.
Review
Oncology
Antonio Filippini, Luca Tamagnone, Alessio D'Alessio
Summary: Recent findings suggest that targeting endothelial cell metabolism may be an alternative strategy for antiangiogenic therapy and a novel approach for treating cardiovascular diseases. Understanding how endothelial cells adapt their metabolic status in response to changes in the tissue microenvironment could help develop innovative treatments to counteract abnormal blood vessel growth.
Article
Cell Biology
Margherita Festa, Velia Minicozzi, Anna Boccaccio, Laura Lagostena, Antonella Gradogna, Tianwen Qi, Alex Costa, Nina Larisch, Shin Hamamoto, Emanuela Pedrazzini, Stefan Milenkovic, Joachim Scholz-Starke, Matteo Ceccarelli, Alessandro Vitale, Petra Dietrich, Nobuyuki Uozumi, Franco Gambale, Armando Carpaneto
Summary: This review focuses on current methods used to unravel the functional properties of lysosomal ion channels and transporters, evaluating their advantages, disadvantages, and fields of applicability.
Article
Oncology
Silvia Sideri, Francesco Petragnano, Roberto Maggio, Simonetta Petrungaro, Angela Catizone, Luisa Gesualdi, Viviana De Martino, Giulia Battafarano, Andrea Del Fattore, Domenico Liguoro, Paola De Cesaris, Antonio Filippini, Francesco Marampon, Anna Riccioli
Summary: The study found that highly metastatic prostate cancer cells show increased sensitivity to Docetaxel after radiotherapy failure and suggests immediate chemotherapy after radiotherapy failure may benefit certain patients. Furthermore, using a higher dose per fraction for radiotherapy in castration-resistant prostate cancer cells was not successful, but the results may vary between different cell lines.
Article
Plant Sciences
Antonella Gradogna, Laura Lagostena, Sara Beltrami, Edoardo Tosato, Cristiana Picco, Joachim Scholz-Starke, Francesca Sparla, Paolo Trost, Armando Carpaneto
Summary: Ascorbate is a major redox buffer in plant cells, and its antioxidant activity depends on the ratio with its oxidation product monodehydroascorbate. Vacuoles isolated from Arabidopsis mesophyll cells contain a tonoplast electron transport system that works as a reversible MDHA oxidoreductase. The expression of CYB561A, a tonoplast redox protein, is crucial for trans-tonoplast electron currents and the response to high-light stress.
Article
Plant Sciences
Iny Elizebeth Mathew, Hormat Shadgou Rhein, Jian Yang, Antonella Gradogna, Armando Carpaneto, Qi Guo, Ryan Tappero, Joachim Scholz-Starke, Bronwyn J. Barkla, Kendal D. Hirschi, Tracy Punshon
Summary: This study reveals that multiple H+/Cation transporters in Arabidopsis participate in high-capacity transport into the vacuole and regulate leaf elemental content. It also shows that reducing endogenous calcium levels can improve plants' tolerance to anoxia.
PLANT CELL AND ENVIRONMENT
(2023)
Article
Chemistry, Physical
Stefan Milenkovic, Igor V. Bodrenko, Armando Carpaneto, Matteo Ceccarelli
Summary: This article discusses the important role of mammalian two-pore channels in maintaining cellular life processes, particularly the significance of hTPC2 in viral infections. Through molecular simulations, a model for sodium ion transport is proposed.
PHYSICAL CHEMISTRY CHEMICAL PHYSICS
(2021)
