Review
Biochemistry & Molecular Biology
Aziz M. Rangwala, Victoria R. Mingione, George Georghiou, Markus A. Seeliger
Summary: Phosphorylation plays a vital role in regulating biological processes, and protein kinases have been extensively studied for their involvement in human health and disease. Some kinases possess additional catalytic functions in addition to phosphotransferase activity, while others have lost their catalytic activity completely. In this study, we analyzed the UniProtKB database for bifunctional protein kinases and focused on those crucial for bacterial and human cellular homeostasis. These kinases have diverse functional roles in environmental sensing, metabolic regulation, immune-host defense, and cell cycle control. This article explores their dual catalytic activities and their contributions to disease pathogenesis.
Article
Biochemical Research Methods
Yasunori Sugiyama, Yuuki Uezato
Summary: Protein kinases play crucial roles in regulating biological processes and disease pathogenesis. Investigating the phosphorylation status of protein kinases is essential for understanding biological phenomena and disease mechanisms. Phos-tag, a tool for studying protein phosphorylation, along with techniques like Phos-tag SDS-PAGE, has been developed for analyzing protein phosphorylation.
JOURNAL OF PROTEOMICS
(2022)
Review
Biochemistry & Molecular Biology
Giulia Franciosa, Marie Locard-Paulet, Lars J. Jensen, Jesper Olsen
Summary: Mass spectrometry-based phosphoproteomics is the leading method for studying global kinase signaling. Various technological improvements and bioinformatic resources are available to accurately identify and quantify phosphopeptides, interpret large-scale data, and understand kinase network functional role. This review presents the latest experimental and bioinformatic tools for profiling protein kinase signaling networks and their applications in biomedicine.
CURRENT OPINION IN CHEMICAL BIOLOGY
(2023)
Review
Biochemistry & Molecular Biology
Bozena Klodova, Jan Fila
Summary: Angiosperm mature pollen enters quiescence before pollination, but rapidly activates and grows a pollen tube post-pollination, accompanied by metabolic activity and protein synthesis. Phosphoproteomic studies aim to compare different species' pollen development and discover common proteins involved in root hair growth.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Review
Biochemistry & Molecular Biology
Scott E. Roffey, David W. Litchfield
Summary: CK2, an acidophilic serine/threonine kinase, regulates various biological processes such as apoptosis and cell proliferation. Studies have linked CK2 to human malignancies and diseases, but the mechanisms regulating CK2 activity remain incompletely understood.
Article
Microbiology
Ao Zhang, Frederique Pompeo, Anne Galinier
Summary: Protein phosphorylation is a post-translational modification that regulates protein activity by adding a phosphate moiety through protein kinases or phosphotransferases. Bacteria phosphorylate proteins involved in sugar utilization on histidine and cysteine residues, and specifically phosphorylate proteins on tyrosine and arginine residues using BY-kinases and arginine kinases. Bacteria also possess unique protein kinases, exemplified by Bacillus subtilis.
RESEARCH IN MICROBIOLOGY
(2021)
Review
Biochemistry & Molecular Biology
Christian Borgo, Claudio D'Amore, Luca Cesaro, Stefania Sarno, Lorenzo A. Pinna, Maria Ruzzene, Mauro Salvi
Summary: CK2 is a constitutively active protein kinase that plays a crucial role in maintaining phosphorylation levels for various substrates, supporting important biological functions. However, its activity must be carefully regulated to prevent pathological consequences, especially in diseases like cancer, chronic inflammation, and neurodegeneration. Understanding the regulation of CK2 is essential for potential therapeutic interventions in related diseases.
CRITICAL REVIEWS IN BIOCHEMISTRY AND MOLECULAR BIOLOGY
(2021)
Article
Biochemical Research Methods
Harumi Kagiwada, Takayuki Kiboku, Hitomi Matsuo, Masashi Kitazawa, Kazuhiko Fukui, Katsuhisa Horimoto
Summary: Cellular protein phosphorylation is crucial for signal transduction, and the newly developed phosphorylation array system effectively assesses the activity of signaling pathways perturbed by external stimuli, offering a new approach to understanding intracellular signal transduction mechanisms.
Review
Medicine, General & Internal
Jiawen Chen, Yafei Li, Chong Du, Tianwen Wei, Tiankai Shan, Liansheng Wang
Summary: Protein kinases play a crucial role in cardiovascular diseases and their study is of great significance for heart repair and treatment.
CHINESE MEDICAL JOURNAL
(2022)
Article
Cell Biology
Yun Lu, Xiangyu Li, Kai Zhao, Yuanxin Shi, Zhengdong Deng, Wei Yao, Jianming Wang
Summary: This study identified novel protein kinases associated with cholangiocarcinoma (CCA) and demonstrated the effectiveness of the pan-inhibitor of the PKD family, 1-naphthyl PP1 (1-NA-PP1), in inhibiting the proliferation, migration, and invasion ability of CCA cells. These findings provide new therapeutic targets for CCA.
Article
Biochemistry & Molecular Biology
Dhirendra K. Sharma, Subhash C. Bihani, Mohammad Q. Siddiqui, Hari S. Misra, Yogendra S. Rajpurohit
Summary: RqkA is a DNA damage responsive serine/threonine kinase with a unique structure in D. radiodurans. The WD40 domain in RqkA plays a crucial role in regulating its kinase signaling functions, interaction, and activation of kinase activity.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2022)
Article
Cell Biology
Rijwan Uddin Ahammad, Tomoki Nishioka, Junichiro Yoshimoto, Takayuki Kannon, Mutsuki Amano, Yasuhiro Funahashi, Daisuke Tsuboi, Md. Omar Faruk, Yukie Yamahashi, Kiyofumi Yamada, Taku Nagai, Kozo Kaibuchi
Summary: Protein phosphorylation plays a critical role in intracellular signaling pathways and physiological functions in the brain. Dysregulation of these pathways is associated with neurodevelopmental disorders. This study developed an online database to provide information on phosphorylation signals and analyzed related pathways.
Review
Cell Biology
Vanessa M. Ruscetta, Taj J. J. Seaton, Aleen Shakeel, Stanley N. S. Vasconcelos, Russell D. D. Viirre, Marc J. J. Adler, Michael F. F. Olson
Summary: Cytoskeleton organization and dynamics are regulated by post-translational modifications of key target proteins, including the phosphorylation of myosin light chain proteins by MRCK kinases. Compared to ROCK kinases, the contributions of MRCK kinases are less characterized due to the late discovery of selective inhibitors. The recent development of selective MRCK inhibitors has expanded the tools to study MRCK function and shown therapeutic benefits in cancer studies.
Article
Plant Sciences
Eshan Sharma, Akanksha Bhatnagar, Avantika Bhaskar, Susmita M. Majee, Martin Kieffer, Stefan Kepinski, Paramjit Khurana, Jitendra P. Khurana
Summary: The rice FB protein-coding gene OsFBX257 is differentially expressed under drought conditions and other abiotic stresses. It plays a significant role in modulating root architecture and improving drought stress tolerance in rice. OsFBX257 is a potential breeding target for alleviating drought stress-induced damage in rice.
PLANT CELL AND ENVIRONMENT
(2023)
Article
Anesthesiology
Attila Keresztes, Keith Olson, Paul Nguyen, Marissa A. Lopez-Pier, Ryan Hecksel, Natalie K. Barker, Zekun Liu, Victor Hruby, John Konhilas, Paul R. Langlais, John M. Streicher
Summary: This study reveals a new function of opioid receptors as a negative feedback brake on opioid-induced analgesia. By using a selective antagonist for the mu and delta opioid receptors (MDOR), the researchers found that the antagonist could enhance the analgesic effect of oxymorphone in mice, suggesting a role for MDOR in regulating pain. Additionally, the study found that the enhancement effect was selective to MDOR and occurred through the repression of Src and CaMKII signal transduction. These findings suggest that MDOR antagonism could be a potential approach to improve clinical opioid therapy.
Article
Engineering, Biomedical
Zhengming Zhou, Ke Li, Lei Shi, Yunfeng Wang, Yunxiang He, Wen Hu, Junling Guo
Summary: A nutrient carrier platform constructed with green tea catechin and ferrous ions effectively prolongs the residence and absorption time of nutrients in the intestine, improving the nutritional status, anemia, immune function, intestinal tissue growth, and integrity of the intestinal barrier in a rat model of short bowel syndrome. The platform also modulates gut microbial dysbiosis and increases the abundance of beneficial bacteria. This study provides evidence for the use of polyphenol-based nanocomplexes as enteral nutrition preparation for SBS treatment.
ADVANCED HEALTHCARE MATERIALS
(2023)
Article
Pharmacology & Pharmacy
Shadi Rahimi, Daniel van Leeuwen, Fariba Roshanzamir, Santosh Pandit, Lei Shi, Nima Sasanian, Jens Nielsen, Elin K. Esbjoerner, Ivan Mijakovic
Summary: To enhance the delivery of doxorubicin (DOX) and minimize its side effects, researchers developed a pH-responsive delivery system based on graphene oxide (GO) that can release drugs specifically in acidic tumor environments.
Review
Microbiology
Pragati Rajendra More, Santosh Pandit, Anna De Filippis, Gianluigi Franci, Ivan Mijakovic, Massimiliano Galdiero
Summary: This review focuses on the synthesis of silver nanoparticles (AgNPs) and their mechanism of action against antibiotic-resistant and biofilm-forming bacteria. AgNPs exert their antibacterial effects through oxidative stress, protein dysfunction, membrane disruption, and DNA damage in bacteria. They also prevent biofilm formation by altering bacterial cell adhesion. However, the medical use of AgNPs is limited by their harmful effects on humans and the environment. The review compiles recent studies on the antibacterial activity of AgNPs and discusses their potential applications in medicine.
Article
Chemistry, Multidisciplinary
Shadi Rahimi, Teo Lovmar, Alexandra Aulova, Santosh Pandit, Martin Lovmar, Sven Forsberg, Magnus Svensson, Roland Kadar, Ivan Mijakovic
Summary: To combat bacterial infections in the post-antibiotic era, efforts are being made to engineer new materials with antibacterial properties. A new automated pipeline based on scanning electron microscopy images has been developed to predict the antibacterial potential of these materials. The density of sharp exposed edges of graphite-oriented nanoplatelets (GNPs) is a key factor in killing bacteria on contact.
Article
Materials Science, Multidisciplinary
Tao Liu, Song Gao, Xuanyi Shen, Zhiping Sun, Lei Shi, Sachin Kumar, Chunliang Yang
Summary: In this study, high-strength industrial-grade dissimilar joints of Al and steel were successfully obtained using conventional friction stir welding (FSW) and ultrasonic vibration enhanced friction stir welding (UVeFSW) techniques. Ultrasonic vibrations effectively promoted material flow and increased the mixing degree and width of the Al/steel interface. The thinner intermetallic compounds (IMCs) layer at the interface of UVeFSW joints was caused by decreased peak temperature during welding. The failure load of the joint was improved by 25.8% compared to conventional FSW when the welding speed was 100 mm/min.
MATERIALS TODAY COMMUNICATIONS
(2023)
Article
Materials Science, Multidisciplinary
Yang Li, Lei Shi, Chuansong Wu, Shengli Li
Summary: An innovative DS-FSZW process was proposed for welding medium-thick Ti/Al dissimilar metals. Compared to the traditional DS-FSW joint, the DS-FSZW joint eliminates the weak bonding zone and adds a lap joining surface. The DS-FSZW joint also forms a thinner IMCs layer between the Ti/Al interface, increasing the effective bonding strength.
MATERIALS TODAY COMMUNICATIONS
(2023)
Article
Materials Science, Multidisciplinary
Yichen Xiao, Yang Li, Lei Shi, Chuansong Wu, Huijie Liu, Zhen Sun
Summary: Friction stir additive manufacturing (FSAM) is a novel solid-phase additive manufacturing method. A finite element model (FEM) of FSAM was proposed to quantitatively study the thermal processes and mechanical properties of FSAM components. The results show that the volume of the additive zone in FSAM increases with the tool rotation speed and decreases with the transverse speed. The height and width of the hook structure decrease with the transverse speed. The tensile strength of FSAM components initially increases with the transverse speed and reaches its maximum at 90 mm/min, then decreases. The maximum value of the thermal cycle decreases with the transverse speed, while the high-temperature residence time increases with the decrease in transverse speed.
MATERIALS TODAY COMMUNICATIONS
(2023)
Article
Chemistry, Multidisciplinary
Xin Chen, Santosh Pandit, Lei Shi, Vaishnavi Ravikumar, Julie Bonne Kohler, Ema Svetlicic, Zhejian Cao, Abhroop Garg, Dina Petranovic, Ivan Mijakovic
Summary: Alzheimer's disease is a common neurodegenerative disease characterized by the aggregation of misfolded amyloid-beta peptides in the brain. Graphene oxide nanoflakes have been found to effectively inhibit A beta aggregation in vitro. In this study using yeast as a model, it is shown that graphene oxide can penetrate yeast cells and reduce A beta 42 toxicity. The findings provide insights for designing graphene oxide-based therapies for attenuating cytotoxicity of A beta 42 and other misfolded proteins involved in neurodegenerative pathology.
ADVANCED FUNCTIONAL MATERIALS
(2023)
Article
Chemistry, Multidisciplinary
Zhejian Cao, Xiaozhi Fu, Hao Li, Santosh Pandit, Francoise M. Amombo Noa, Lars Ohrstrom, Aleksej Zelezniak, Ivan Mijakovic
Summary: This study successfully synthesized MOFs using enzymatically recycled PET, demonstrating the feasibility of this approach. Compared to conventional methods, this approach avoids the use of strong acids or bases and high temperatures, leading to reduced environmental and energy penalties.
ACS SUSTAINABLE CHEMISTRY & ENGINEERING
(2023)
Article
Materials Science, Multidisciplinary
Xue Wang, Yichen Xiao, Lei Shi, Ming Zhai, Chuansong Wu, Gaoqiang Chen
Summary: Experiments have confirmed that tool tilting in friction stir welding (FSW) can effectively prevent void defects. However, the mechanism of this suppressive effect is still unknown. In this study, a CFD model that considers tool tilting is established, and a non-uniform distribution of normal pressure is proposed to explain the relationship between tool tilt angle and tool-workpiece contact interfaces. The results show that tool tilting leads to higher heat flux and temperature near the pin side in the middle and low parts of the workpiece, which helps to heal voids on the advancing side of the FSW joints. The model is validated by experimental results.
JOURNAL OF MATERIALS RESEARCH AND TECHNOLOGY-JMR&T
(2023)
Article
Materials Science, Multidisciplinary
Tao Liu, Song Gao, Weicheng Ye, Lei Shi, Sachin Kumar, Junnan Qiao
Summary: This study compared the weld forming characteristics and microstructure differences of lap joints of 6061-T6 aluminum alloy/Q235 steel obtained by conventional friction stir welding and ultrasonic vibration enhanced friction stir welding. The results showed that ultrasonic vibrations effectively improved the weld surface forming quality, increased plastic flow materials volume, improved welding speed, and changed the fracture position and fracture mechanism of the joint.
JOURNAL OF MATERIALS RESEARCH AND TECHNOLOGY-JMR&T
(2023)
Article
Materials Science, Multidisciplinary
Faliang He, Chuansong Wu, Lei Shi
Summary: This study developed a numerical simulation method to investigate the dynamic recrystallization behavior during friction stir welding of dissimilar Al/Mg alloys. The results show significant changes in grain size and dislocation density during the welding process, with the final grain size on the Al side being lower.
JOURNAL OF MATERIALS RESEARCH AND TECHNOLOGY-JMR&T
(2023)
Article
Nanoscience & Nanotechnology
Jian Zhang, Nisha Neupane, Puspa Raj Dahal, Shadi Rahimi, Zhejian Cao, Santosh Pandit, Ivan Mijakovic
Summary: Developed antibiotic-loaded boron nitride nanoconjugates with strong antimicrobial properties for combating bacterial biofilms.
ACS APPLIED BIO MATERIALS
(2023)
Article
Materials Science, Multidisciplinary
Tao Liu, Song Gao, Xuanyi Shen, Qipeng Yin, Lei Shi, Sachin Kumar, Junnan Qiao, Hui Zhang
Summary: The optimization mechanism of ultrasonic power on the performance of aluminum/steel dissimilar metal ultrasonic vibration enhanced friction stir welding (UVeFSW) joints was studied. The results showed that ultrasonic vibration can improve the surface forming quality of the weld seam, increase the width of the joint interface zone, adjust the height of the hook structure, suppress the generation of intermetallic compounds, and enhance the failure load of the joints.
Article
Multidisciplinary Sciences
Jiangang Wang, Lei Shi, Ding Feng, Paul Tu
Summary: This study investigates the multi-bolt load distribution characteristics of different transmission mechanisms in drilling rigs and proposes an evaluation method for bolted connections. The impacts of various factors on the connection are examined, providing insights for the design of bolted connections in heavy-duty drive systems.
Article
Biochemistry & Molecular Biology
A. Prabakaran, Amit Alexander
Summary: The molecular interactions and mucoadhesive nature of chitosan-coated liposomes with mucin are crucial for the development of an effective drug delivery system. The positively charged SA-CH-LPs showed stronger interaction and better mucoadhesive properties compared to negatively charged SALPs, thereby improving drug retention in the nasal cavity and enhancing therapeutic efficacy.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2024)
Article
Biochemistry & Molecular Biology
Maryam Noei-Khesht Masjedi, Esmaeil Sadroddiny, Jafar Ai, Saeed Balalaie, Yazdan Asgari
Summary: This study discovered an effective strategy for cargo sorting within exosomes by incorporating an appropriate cleavage site, providing further insight into the potential of exosomes as nano-shuttles bearing therapeutic biomolecules.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2024)
Article
Biochemistry & Molecular Biology
Pei -Gee Yap, Chee-Yuen Gan
Summary: This study collected the sequences of 128 tyrosinase inhibitory peptides and analyzed their hydrophobicity/hydrophilicity properties and amino acid profiles. Molecular docking analysis was used to investigate the binding interactions between peptides and tyrosinase. The study found that hydrophobic and/or polar neutral properties facilitate or stabilize peptide binding with tyrosinase, and short peptides with cysteine and tyrosine tend to bind to the active site of tyrosinase. These findings provide detailed explanations for the relationship between peptide/amino acid structures and tyrosinase inhibition, as well as potential anti-melanogenesis mechanisms for peptide-based treatments against skin hyperpigmentation.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2024)
Article
Biochemistry & Molecular Biology
Ye Yang, Hai-Lian Chen, Su Fang Wu, Wei Bao
Summary: The study found that CHMP4B and VPS4A play an important role in reversing GSDMD-mediated pyroptosis by facilitating cell membrane remodeling in endometrial carcinoma.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2024)
Article
Biochemistry & Molecular Biology
Aya Al Othman, Dmitry Bagrov, Julian M. Rozenberg, Olga Glazova, Gleb Skryabin, Elena Tchevkina, Alexandre Mezentsev, Mikhail Durymanov
Summary: Arc protein is found in glutamatergic neurons of vertebrates and can be transferred between neurons in extracellular vesicles (EVs). In glioma cells, Arc protein is also present in EVs and can facilitate the transfer of mRNA, potentially contributing to tumor progression and affecting synaptic plasticity in cancer patients.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2024)
Article
Biochemistry & Molecular Biology
Nan Zhang, Meng-yu Shen, Qing-li Meng, Hao-ping Sun, Fang-yi Fan, Hai Yi, Yong-jian Yang
Summary: In this study, it was demonstrated for the first time that FAT1 inhibited AML proliferation by reducing autophagy level. FAT1 achieved this by decreasing the expression of ATG4B, which is related to autophagy. Mechanistically, FAT1 decreased the levels of phosphorylated and intranuclear smad2/3, thus decreasing the activity of the ATG4B gene promoter. It was also found that FAT1 competitively bound to TGF-beta R II, leading to reduced phosphorylation of TGF-beta R I and smad2/3. Knockdown of FAT1 promoted AML autophagy and proliferation in vivo.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2024)
Article
Biochemistry & Molecular Biology
Oleh Demianchuk, Myroslava Vatashchuk, Dmytro Gospodaryov, Viktoria Hurza, Marian Ivanochko, Vitalii Derkachov, Vladyslav Berezovskyi, Oleh Lushchak, Kenneth B. Storey, Maria Bayliak, Volodymyr I. Lushchak
Summary: This study investigated the effects of a high-fat high-fructose diet (HFFD) on the behavior, energy metabolism, and oxidative stress markers in the cerebral cortex of mice. The results showed that HFFD stimulated locomotion and defecation, while an AKG-supplemented diet had a tendency to promote anxiety-like behavior. Additionally, there were significant differences in glutathione-dependent detoxification and processes related to autophagy between the two diets.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2024)
Article
Biochemistry & Molecular Biology
Yusaku Chukai, Ginga Ito, Yasuo Miki, Koichi Wakabayashi, Ken Itoh, Eriko Sugano, Hiroshi Tomita, Tomokazu Fukuda, Taku Ozaki
Summary: The study found that mitochondrial calpain-5 plays an important role in the occurrence and development of ischemia-reperfusion injury and is expressed in the human and mouse brains. Targeting the expression or activity of mitochondrial calpain-5 may have significant implications for suppressing inflammation during I/R injuries such as cerebrovascular diseases.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2024)
Article
Biochemistry & Molecular Biology
Aline Dias da Purificaca, Victor Debbas, Leonardo Yuji Tanaka, Gabriele Veronica de Mello Gabriel, Joao Wosniak Junior, Tiphany Coralie De Bessa, Sheila Garcia-Rosa, Francisco Rafael Martins Laurindo, Percillia Victoria Santos Oliveira
Summary: The ER transmembrane chaperones DNAJB12 and DNAJB14 play important roles in protein folding and ER stress response. They are regulated by thiol redox processes and are involved in ER protein reflux.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2024)
Article
Biochemistry & Molecular Biology
Ekaterina O. Bryanskaya, Andrey Y. Vinokurov, Angelina I. Dolgikh, Andrey Dunaev, Plamena R. Angelova, Andrey Y. Abramov
Summary: FAD autofluorescence in cells can assess enzymatic activity, and its intensity variations may be related to different cell types and tissues. High levels of FAD autofluorescence can indicate cell pathology and potentially predict the occurrence of apoptosis and necrosis.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2024)
Article
Biochemistry & Molecular Biology
Rumei Luan, Manyu Luo, Dongyan Ding, Xin Su, Junling Yang
Summary: Zinc deficiency can worsen obesity-related lung damage, and Nrf2 activation is one of the important mechanisms of this protective effect. Regulating zinc homeostasis can contribute to the prevention and treatment of obesity-related lung injury.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS
(2024)