Article
Immunology
Li-Li An, Xiang Zhao, Xiu-Ying Gong, Yi-Lin Li, Zi-Ling Qu, Hao-Yu Sun, Wen-Hao Guo, Cheng Dan, Jian-Fang Gui, Yi-Bing Zhang
Summary: The study reveals the regulatory roles of zebrafish IRF family members in interferon response, which are influenced by their subcellular localization and promoter binding. Zebrafish IRF family members display three distinctive patterns of constitutive localization and can act as activators or repressors of interferon gene transcription.
FRONTIERS IN IMMUNOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Bruno Rizzuti, Juan L. Iovanna, Jose L. Neira
Summary: This study investigated the binding ability of NLS-Myc peptide to Imp alpha 3 and Delta Imp alpha 3 through experiments and simulations. The results showed that NLS-Myc can interact with both importin species, and there are some unique properties in the binding process, such as the difference in the release mechanism depending on the presence or absence of the IBB domain.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Cell Biology
Jose L. Neira, Bruno Rizzuti, Olga Abian, Salome Araujo-Abad, Adrian Velazquez-Campoy, Camino de Juan Romero
Summary: This study investigates the role of PADI4 in cancer and examines the binding ability of intact PADI4 with nuclear transport factor Imp alpha 3 and its truncated species, as well as two peptides covering the NLS regions. The findings indicate that both NLS regions play a crucial role in the interaction between PADI4 and importin species.
Article
Biology
Matthieu Corvaisier, Jingkai Zhou, Darina Malycheva, Nicola Cornella, Dimitrios Chioureas, Nina M. S. Gustafsson, Catalina Ana Rossello, Silvia Ayora, Tongbin Li, Kristina Ekstrom-Holka, Karin Jirstrom, Lisa Lindstrom, Maria Alvarado-Kristensson
Summary: The study revealed the importance of gamma-tubulin location changes in cell survival and genome integrity. Gamma-tubulin’s nuclear accumulation facilitates the transport and recruitment of PCNA to chromatin, contributing to cell proliferation and maintenance of genome stability. The complex formation between PCNA and gamma-tubulin plays a crucial role in tumor growth and DNA repair through replication fork progression.
COMMUNICATIONS BIOLOGY
(2021)
Article
Biochemical Research Methods
Shunsuke Takahashi, Masahiko Oshige, Shinji Katsura, Yukitoshi Nagahara
Summary: In this study, a double-stranded DNA (dsDNA) fluorescent labeling method using fusion proteins of fluorescent protein (FP) and 7 kDa DNA-binding family members was developed. The method successfully enabled single-molecule imaging of stretched bacteriophage lambda DNA molecules on glass surfaces. The fluorescence decay of the labeled DNA was slower than that of the typical intercalating method, and the dynamic behaviors of the labeled DNA were similar to those with typical intercalating dyes. This study establishes FP fusion proteins as useful fluorescent DNA probes at the single-molecule level.
ANALYTICAL BIOCHEMISTRY
(2023)
Article
Biochemistry & Molecular Biology
Chang Lu, Anand Lopez, Jinkai Zheng, Juewen Liu
Summary: This study examined the possibility of using DNA intrinsic fluorescence to study aptamer binding. The results showed that DNA hybridization led to a decrease in fluorescence, while specific aptamers induced fluorescence increases. The length of the terminal stem had an impact on the fluorescence change for certain aptamers, while others failed to produce a fluorescence change.
Article
Cell Biology
Maddison Rose, Bond Bai, Ming Tang, Chee Man Cheong, Sam Beard, Joshua T. Burgess, Mark N. Adams, Kenneth J. O'Byrne, Derek J. Richard, Neha S. Gandhi, Emma Bolderson
Summary: Banf1 is a critical component of the nuclear envelope, involved in maintaining chromatin structure and genome stability. Variants in Banf1 impact DNA binding ability without altering nuclear integrity. This study provides insight into Banf1 function and its potential impact on nuclear structure and human health.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Review
Biochemistry & Molecular Biology
Geoffrey K. Herrmann, Y. Whitney Yin
Summary: This review summarizes the differences between mitochondrial and nuclear Base Excision Repair (BER) pathways, the involvement of PARP-1 in mitochondrial and nuclear BER, and its functional interplay with other BER enzymes.
Article
Biochemistry & Molecular Biology
Md. Saddam Husain Ansari, Naveen Kumar, Sriyans Jain, N. Yogesh Balakarthick, Ranjan Sen
Summary: We screened a clone from a genomic library of mycobacteriophages and found it to have mycobactericidal properties. This clone codes for a protein called Gp49, which is highly conserved among mycobacteriophages and likely plays a role in phage DNA replication. Gp49 is a high-affinity heparin-binding protein that can bind to both linear dsDNA and ssDNA/cooperatively, inhibiting transcription and displacing DNA-binding proteins. Its heparin-binding ability could have therapeutic/diagnostic applications in bacterial sepsis treatment.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2023)
Editorial Material
Multidisciplinary Sciences
Lori Frappier
Summary: A protein called EBNA1 from Epstein-Barr virus has been proven to bind to and break human chromosome 11, resulting in genomic instability that might contribute to cancer susceptibility.
Article
Biochemical Research Methods
Yang Lin, Xiaoyong Pan, Hong-Bin Shen
Summary: This study presents an updated cell-line-specific predictor IncLocator 2.0, which uses deep models trained per cell line to predict IncRNA subcellular localization from sequences. By constructing benchmark datasets, learning word embeddings, and utilizing different neural networks, IncLocator 2.0 achieves varying effectiveness in different cell lines and demonstrates the necessity of training cell-line-specific models. Moreover, the use of Integrated Gradients helps explain the proposed model and identifies potential patterns related to specific nucleotides that determine the subcellular localizations of IncRNAs.
Article
Biochemistry & Molecular Biology
Shravya Rao Madku, Bijaya Ketan Sahoo, K. Lavanya, Ragaiahgari Srinivas Reddy, Anna Tanuja Safala Bodapati
Summary: The binding nature of posaconazole, a triazole antifungal drug, with calf-thymus DNA was investigated using spectroscopic techniques and molecular docking studies. A binding constant of the order of 103 M-1 was observed, indicating a strong interaction between posaconazole and calf-thymus DNA. The experimental results suggested that posaconazole binds within the minor groove of calf-thymus DNA, which was further confirmed by molecular docking studies.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2023)
Article
Cell Biology
Aidan J. Preston, Aaron Rogers, Miranda Sharp, Gareth Mitchell, Cristhian Toruno, Brayden B. Barney, Lauren N. Donovan, Journey Bly, Ryan Kennington, Emily Payne, Anthony Iovino, Gabriela Furukawa, Rosann Robinson, Bahar Shamloo, Matthew Buccilli, Rachel Anders, Sarah Eckstein, Elizabeth A. Fedak, Tanner Wright, Carlo C. Maley, Wendy K. Kiso, Dennis Schmitt, David Malkin, Joshua D. Schiffman, Lisa M. Abegglen
Summary: There are approximately 20 TP53 retrogenes in the African and Asian elephant genomes, along with a conserved TP53 gene that encodes a full-length protein. The elephant TP53-RETROGENE 9 (TP53-R9) encodes a truncated p53 protein (p53-R9) that lacks important functional domains. The expression of this truncated elephant p53 retrogene protein induces apoptosis in human cancer cells, suggesting its potential use in therapeutic development.
CELL DEATH DISCOVERY
(2023)
Article
Chemistry, Physical
Yuting Miao, Robert C. Boutelle, Anastasia Blake, Vigneshwaran Chandrasekaran, Chris J. Sheehan, Jennifer Hollingsworth, Daniel Neuhauser, Shimon Weiss
Summary: Plasmonic nano-objects have great potential in various applications. This study investigates the interaction between quantum dots (QDs) and L-shaped gold nanoantennas, and demonstrates that this strong interaction can induce polarization-dependent modifications to the QD emission intensity, polarization, and localization.
JOURNAL OF PHYSICAL CHEMISTRY LETTERS
(2022)
Review
Pharmacology & Pharmacy
Sawako Shindo, Satoru Kakizaki, Toshiyuki Sakaki, Yuki Kawasaki, Tsutomu Sakuma, Masahiko Negishi, Ryota Shizu
Summary: Nuclear receptors collectively regulate biological functions and have diverse roles beyond transcription activation. While most are activated by ligand binding, some are phosphorylated. The physiological relevance of phosphorylation in nuclear receptor activity has been confirmed, especially within conserved domains. This review focuses on estrogen and androgen receptors and highlights phosphorylation as a potential drug target.
PHARMACOLOGY & THERAPEUTICS
(2023)
Review
Biochemistry & Molecular Biology
A. Kunwar, K. Indira Priyadarsini, Vimal K. Jain
Summary: This comprehensive review highlights the potential of the organoselenium compound DSePA for various biological applications, including antioxidative, anticarcinogenic, and radioprotective activities. Studies have shown that DSePA exhibits protective effects against radiation-induced normal tissue side effects, particularly in lung tissue, and has promising pharmacokinetic properties with maximum absorption in the lung.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2021)
Article
Biochemistry & Molecular Biology
Dharmendra Kumar Maurya, Deepak Sharma
Summary: Since its emergence in Wuhan, China in December 2019, the novel Coronavirus (SARS-CoV-2) infection has spread to over 205 countries. With no FDA approved drugs or vaccines available for prevention and treatment, there is an urgent need to identify new approaches. This study explored the potential of phytochemicals and active pharmacological agents present in Indian herbs used in Ayurvedic medicines to control respiratory disorders. The findings showed that these phytochemicals have significant anti-inflammatory properties and potential to inhibit SARS-CoV-2 infection.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2022)
Article
Pharmacology & Pharmacy
Harsh A. Joshi, Raghavendra S. Patwardhan, Deepak Sharma, Santosh K. Sandur, Padma Devarajan
Summary: The use of in-situ solid lipid nanoparticles (SLNB) encapsulated baicalein (BCL) has been shown to provide significant radioprotection, enhance sensitivity of cancer cells to radiation, and potentially serve as an adjuvant therapy during cancer radiotherapy.
INTERNATIONAL JOURNAL OF PHARMACEUTICS
(2021)
Article
Biochemistry & Molecular Biology
Bharti Patel, Subrata Mishra, Indira K. Priyadarsini, Sirisha L. Vavilala
Summary: The study demonstrates that selenocystine has potential anti-biofilm properties against bacteria causing respiratory tract infections, inhibiting growth and reducing biofilm formation. Selenocystine effectively eradicates preformed biofilms and distorts biofilm structures by degrading eDNA components.
BIOLOGICAL CHEMISTRY
(2021)
Article
Biochemistry & Molecular Biology
Debojyoti Pal, Archita Rai, Rahul Checker, R. S. Patwardhan, Babita Singh, Deepak Sharma, Santosh K. Sandur
Summary: Mammalian cell survival and proliferation rely heavily on their response and adaptation to changes in the redox environment, with cancer cells often living in altered redox environments. Glutathione plays a crucial role in maintaining redox homeostasis by S-glutathionylation, protecting cysteine residues from oxidation and functioning as a sensor for redox status.Understanding the role of redox adaptations during carcinogenesis, including S-glutathionylation of specific redox-sensitive proteins, is important for developing new treatment strategies, such as redox targeting drugs, for refractory/resistant cancers.
ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS
(2021)
Review
Biochemistry & Molecular Biology
Rahul Checker, Raghavendra S. Patwardhan, Sundarraj Jayakumar, Dharmendra Kumar Maurya, Mayuri Bandekar, Deepak Sharma, Santosh K. Sandur
Summary: Ionizing radiation is widely used in cancer therapy but can cause damage to normal tissues. Radioprotectors are being studied to mitigate these effects, but there is currently no clinically approved radioprotector for whole body radiation.
FREE RADICAL RESEARCH
(2021)
Article
Biochemistry & Molecular Biology
V. V. Gandhi, K. A. Gandhi, L. B. Kumbhare, J. S. Goda, V Gota, K. Priyadarsini, A. Kunwar
Summary: DSePA induces apoptosis in human lung cancer cells by reducing ROS and increasing reducing equivalents, activating intrinsic and extrinsic pathways, and inducing ER stress.
FREE RADICAL BIOLOGY AND MEDICINE
(2021)
Article
Pharmacology & Pharmacy
Gunjan Verma, Akhil Gajipara, Sandeep B. Shelar, K. Priyadarsini, P. A. Hassan
Summary: The CUR-Gel-HAp formulation displayed enhanced cytotoxicity against human lung cancer cells, showed long-term stability, and maintained physicochemical properties and colloidal stability after reconstitution in aqueous medium.
JOURNAL OF DRUG DELIVERY SCIENCE AND TECHNOLOGY
(2021)
Article
Nanoscience & Nanotechnology
Mamatha M. Pillai, Hiren Dandia, Rahul Checker, Sushama Rokade, Deepak Sharma, Prakriti Tayalia
Summary: This study developed multifunctional bilayered dermal patches with antibacterial, antioxidant, and anti-inflammatory properties using solvent casting or electrospinning methods. The patches showed improved wound healing compared to the commercial counterpart, with reduced production of reactive oxygen species and inflammatory cytokines and markers, and improved migration of dermal fibroblasts.
NANOMEDICINE-NANOTECHNOLOGY BIOLOGY AND MEDICINE
(2022)
Article
Oncology
Raghavendra S. Patwardhan, Deepak Sharma, Santosh K. Sandur
Summary: This article reviews the potential utility of thioredoxin reductase (TrxR) inhibitors in radiotherapy, highlighting that inhibiting TrxR can enhance the effectiveness of radiation therapy but may also have negative effects on normal cells.
TRANSLATIONAL ONCOLOGY
(2022)
Article
Biotechnology & Applied Microbiology
Shaukat Ali Shaikh, Bharti Patel, Indira K. Priyadarsini, Sirisha L. Vavilala
Summary: This study discovers that ebselen has potent antibacterial and antibiofilm activity against Serratia marcescens, and it also shows promising anti-quorum sensing potential. This suggests that ebselen could be explored as a treatment for bacterial infections.
INTERNATIONAL MICROBIOLOGY
(2023)
Article
Chemistry, Multidisciplinary
Shaukat Ali M. Shaikh, S. L. Gawali, V. K. Jain, K. Priyadarsini
Summary: The interaction between diselenodipropionic acid (DSePA) and human serum albumin (HSA) has been investigated using spectroscopic and docking methods. The binding constant between DSePA and HSA was estimated, and the molecular interaction was confirmed using isothermal titration calorimetry. The HSA-DSePA complex was analyzed using small angle X-ray scattering and circular dichroism techniques. Molecular docking studies suggested specific interactions at certain amino acid residues. These findings provide evidence for the interaction between DSePA and HSA.
NEW JOURNAL OF CHEMISTRY
(2022)
Review
Cell & Tissue Engineering
Mayuri Bandekar, Dharmendra K. Maurya, Deepak Sharma, Santosh K. Sandur
Summary: Wharton's jelly-derived mesenchymal stem cells (WJ-MSCs) have shown promise in mitigating acute radiation syndrome and protecting against radiation-induced damage, particularly in radiosensitive tissues. Recent findings support the potential safety and effectiveness of WJ-MSCs for treating acute radiation syndrome and lung injuries, with further research needed for clinical translation and understanding of their molecular mechanisms.
CURRENT STEM CELL REPORTS
(2021)
Article
Materials Science, Biomaterials
Ram Pada Das, Beena Gobind Singh, Amit Kunwar
BIOMATERIALS SCIENCE
(2020)
Article
Nanoscience & Nanotechnology
Apurav Guleria, Ashlesha P. Chavan, Suman Neogy, V. V. Gandhi, Amit Kunwar, Anil K. Debnath, Soumyakanti Adhikari
ACS APPLIED NANO MATERIALS
(2020)
Article
Biochemistry & Molecular Biology
Ali Mehri, Karim Mahnam, Hajar Sirous, Mahmoud Aghaei, Leila Rafiei, Mahboubeh Rostami
Summary: One potential approach for tumor therapy is inhibiting the binding between MDM2 and p53 to reactivate p53 in tumor cells. In this study, Monastrol derivatives were designed as MDM2 inhibitors and evaluated for their cytotoxicity on cancer cells. Compound 5d showed the best inhibitory results in silico and in vitro experiments. These findings suggest that Monastrol derivatives have the potential to be candidates for MDM2 inhibition.
CHEMICAL BIOLOGY & DRUG DESIGN
(2024)
