Article
Biology
William J. Allen, Robin A. Corey, Daniel W. Watkins, A. Sofia F. Oliveira, Kiel Hards, Gregory M. Cook, Ian Collinson
Summary: Transport of proteins across and into membranes is a fundamental process in biology. Recent studies have shown that the diffusion of arginine residues limits pre-protein transport, while lysine can be transported across membranes in its neutral form. These findings have implications for understanding the mechanism of protein secretion and suggest a potential role of proton-motive force in aiding transport.
Article
Multidisciplinary Sciences
Linlin Dong, Song Yang, Jingxia Chen, Xiaofei Wu, Dongjie Sun, Chen Song, Long Li
Summary: Secretory proteins are translocated across lipid membranes via protein-conducting channels called SecY in prokaryotes and Sec61 in eukaryotes. SecA, an ATPase, drives the posttranslational translocation of secretory proteins in bacteria through the SecY channel. The mechanism of how SecA moves a polypeptide chain through the SecY channel is poorly understood. This study presents electron cryomicroscopy structures of the active SecA-SecY translocon with a polypeptide substrate, revealing the conformational changes of SecA and the structural basis of polypeptide movement during translocation.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)
Review
Physiology
Sharbani Kaushik, Haoze He, Ross E. Dalbey
Summary: This review summarizes the crucial role of signal peptides in protein export and membrane protein insertion, as well as their function as key factors for protein targeting and translocation machinery activation. The importance of signal peptide removal and degradation, as well as the emerging research on signal peptidases as novel targets for antibiotic development, are also discussed.
FRONTIERS IN PHYSIOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Roslyn M. Bill, Kristina Hedfalk
Summary: Aquaporin water channels play a crucial role in the bi-directional flow of water and solutes, with advancements in structural and functional characterization supported by recombinant protein technology. Escherichia coli and Pichia pastoris are commonly used hosts for prokaryotic and eukaryotic isoforms respectively. Most aquaporin protein structures are determined through X-ray crystallography following a two-step purification procedure after solubilization in glucopyranosides.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2021)
Article
Biochemistry & Molecular Biology
Rocio Esquembre, Maria Lourdes Renart, Jose Antonio Poveda, C. Reyes Mateo
Summary: The nanostructuration of solid matrices with lipid nanoparticles containing membrane proteins is a promising tool for the development of high-throughput screening devices. The results indicate that this device has the potential to be used as a screening platform for potassium channel drugs.
Article
Cell Biology
Di Wu
Summary: The germinal vesicle (GV) stage is a critical transition point in mammalian oocyte development that determines oocyte quality through active RNA degradation and transcriptome reprofiling. Oocyte RNA-seq has revealed differences between non-surrounded nucleolus (NSN) and surrounded nucleolus (SN) phases. Single oocyte RNA-seq (soRNA-seq) shows higher reproducibility and a better illustration of gene changes during oocyte development.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Article
Multidisciplinary Sciences
Aida Rodriguez-Nuevo, Ariadna Torres-Sanchez, Juan M. Duran, Cristian De Guirior, Maria Angeles Martinez-Zamora, Elvan Boke
Summary: Oocytes evade the negative effects of reactive oxygen species (ROS) by eliminating complex I in the mitochondrial electron transport chain. Early oocytes have low levels of complex I and an active mitochondrial unfolded protein response. This suppression of complex I represents a strategy for maintaining biological activity while achieving longevity.
Article
Biochemistry & Molecular Biology
Yu-Jing Lan, Chu -Chun Cheng, Shu-Chi Chu, Yun-Wei Chiang
Summary: This study reveals a previously unknown function of BsYetJ/TMBIM6 in the calcium-dependent inactivation of BsYetJ. It shows that the charged residues E49 and R205 together regulate calcium conductance in ER-like lipid vesicles, but become largely inactive in other lipid environments. Additionally, the residue D195 acts as a minor filter compared to the E49-R205 dyad. These findings provide a framework for developing a lipid-dependent mechanistic model of BsYetJ and further enhance our understanding of calcium-dependent apoptosis.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2023)
Article
Biology
Shuo Wang, Lukas Findeisen, Sebastian Leptihn, Mark I. Wallace, Marcel Hoerning, Stephan Nussberger
Summary: Wang et al. used single-molecule measurements to uncover a potentially new mechanosensitive functionality of mitochondrial TOM core complexes. They found that TOM-CC switches reversibly between different ion permeability states associated with protein diffusion. This behavior is explained by the mechanical binding of TOM-CC to a hydrogel and the opening and closing of beta-barrel pores.
COMMUNICATIONS BIOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Dan-Hong Li, Sam Wilson, Giulia Mastroianni, Alexander V. Ruban
Summary: The major light-harvesting antenna complex (LHCII) in plants plays vital roles in both light harvesting and photoprotection in photosystem II. The thylakoid membrane itself can switch LHCII into the photoprotective state, qE, through a process called hydrophobic mismatch. The acyl chain length (ACL) of lipids regulates the chlorophyll fluorescence lifetime of LHCII, and a decrease in ACL results in quenched conformations of LHCII.
JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY
(2023)
Article
Multidisciplinary Sciences
Karthik Ramachandran, Soumya Maity, Alagar R. Muthukumar, Soundarya Kandala, Dhanendra Tomar, Tarek Mohamed Abd El-Aziz, Cristel Allen, Yuyang Sun, Manigandan Venkatesan, Travis R. Madaris, Kevin Chiem, Rachel Truitt, Neelanjan Vishnu, Gregory Aune, Allen Anderson, Luis Martinez, Wenli Yang, James D. Stockand, Brij B. Singh, Subramanya Srikantan, W. Brian Reeves, Muniswamy Madesh
Summary: SARS-CoV-2 infection causes significant changes in cellular components such as mitochondria, ion channels, and protein quality control. The viral proteins selectively target cellular organelles, including the endoplasmic reticulum and mitochondria. Cyclosporin A has been found to alleviate cell death and cardiomyocyte damage.
Article
Multidisciplinary Sciences
Juan J. Ferreira, Chinwendu Amazu, Lis C. Puga-Molina, Xiaofeng Ma, Sarah K. England, Celia M. Santi
Summary: Depolarization of the myometrial smooth muscle cell (MSMC) resting membrane potential is crucial for the transition from a quiescent to a contractile state in the uterus, with a coupled system between the Na+-activated K+ channel (SLO2.1) and the non-selective Na+ leak channel (NALCN) playing a key role. The activation of SLO2.1 by Na+ entering through NALCN leads to potassium efflux and membrane hyperpolarization, while a decrease in SLO2.1/NALCN activity induces membrane depolarization and triggers Ca2+ entry for contraction. The close proximity of NALCN and SLO2.1 in human MSMCs allows for functional regulation of membrane potential, cell excitability, and uterine contractility.
Article
Oncology
Ellen G. Jarred, Zhipeng Qu, Tesha Tsai, Ruby Oberin, Sigrid Petautschnig, Heidi Bildsoe, Stephen Pederson, Qing-hua Zhang, Jessica M. Stringer, John Carroll, David K. Gardner, Maarten van den Buuse, Natalie A. Sims, William T. Gibson, David L. Adelson, Patrick S. Western
Summary: This study identifies a specific period of early oocyte growth in which PRC2 is expressed in mouse oocytes, deletion of Eed during this window leads to the de-repression of 343 genes. Many of these de-repressed genes are developmental regulators and the majority are not imprinted genes. The findings indicate that EED has spatially and temporally distinct functions in the female germline to repress a wide range of developmentally important genes, and this activity is conserved in the mouse and human germlines.
CLINICAL EPIGENETICS
(2022)
Article
Biochemistry & Molecular Biology
Tiago Baeta, Karine Giandoreggio-Barranco, Isabel Ayala, Elisabete C. C. M. Moura, Paola Sperandeo, Alessandra Polissi, Jean-Pierre Simorre, Cedric Laguri
Summary: The LptB(2)FG complex functions as an ABC transporter to extract LPS from the inner membrane and transport it to the outer membrane, displaying both ATPase and adenylate kinase (AK) activities. The AK activity is regulated by interactions with periplasmic LPS transport proteins and inhibited by the presence of the LptC transmembrane helix.
JOURNAL OF BIOLOGICAL CHEMISTRY
(2021)
Article
Chemistry, Medicinal
Giacomo Sordi, Andrea Goti, Howard S. Young, Ilaria Palchetti, Francesco Tadini-Buoninsegni
Summary: This study proposed a method to investigate the mechanism of interaction between SERCA and novel SERCA activator CDN1163, revealing that CDN1163 can interact reversibly with SERCA and enhance ATP-dependent Ca2+ translocation under physiological conditions.
Article
Biochemical Research Methods
Zhigang Wu, Kuan Jiang, Hailiang Zhu, Cheng Ma, Zaikuan Yu, Lei Li, Wanyi Guan, Yunpeng Liu, He Zhu, Yanyi Chen, Shanshan Li, Jing Li, Jiansong Cheng, Lianwen Zhang, Peng George Wang
BIOCONJUGATE CHEMISTRY
(2016)
Article
Cell Biology
Qin Xu, Richard F. Kopp, Yanyi Chen, Jenny J. Yang, Michael W. Roe, Richard D. Veenstra
AMERICAN JOURNAL OF PHYSIOLOGY-CELL PHYSIOLOGY
(2012)
Article
Biochemistry & Molecular Biology
Yubin Zhou, Wen-Pin Tzeng, Yiming Ye, Yun Huang, Shunyi Li, Yanyi Chen, Teryl K. Frey, Jenny J. Yang
BIOCHEMICAL JOURNAL
(2009)
Article
Biochemistry & Molecular Biology
Jie Jiang, Yubin Zhou, Jin Zou, Yanyi Chen, Priya Patel, Jenny J. Yang, Edward M. Balog
BIOCHEMICAL JOURNAL
(2010)
Article
Biochemistry & Molecular Biology
Yanyi Chen, Yubin Zhou, Xianming Lin, Hing-Cheung Wong, Qin Xu, Jie Jiang, Siming Wang, Monica M. Lurtz, Charles F. Louis, Richard D. Veenstra, Jenny J. Yang
BIOCHEMICAL JOURNAL
(2011)
Article
Biochemistry & Molecular Biology
Yanyi Chen, Shenghui Xue, Juan Zou, Jose R. Lopez, Jenny J. Yang, Claudio F. Perez
BIOCHEMICAL JOURNAL
(2014)
Meeting Abstract
Biophysics
Yanyi Chen, Yubin Zhou, Hing-Cheung Wong, Juan Zou, Jie Jiang, Monica M. Lurtz, Charles F. Louis, Jenny J. Yang
BIOPHYSICAL JOURNAL
(2012)
Meeting Abstract
Biophysics
Juan Zou, Yan Y. Chen, Xue Yun Liu, You Zhuo, Cinzia Ambrosi, Charles K. Mobley, Gina Sosinsky, James Prestegard, Jenny Jie Yang
BIOPHYSICAL JOURNAL
(2013)
Article
Biochemistry & Molecular Biology
Yubin Zhou, Wen-Pin Tzeng, Hing-Cheung Wong, Yiming Ye, Jie Jiang, Yanyi Chen, Yun Huang, Suganthi Suppiah, Teryl K. Frey, Jenny J. Yang
JOURNAL OF BIOLOGICAL CHEMISTRY
(2010)
Article
Biochemistry & Molecular Biology
Yun Huang, Yubin Zhou, Hing-Cheung Wong, Adriana Castiblanco, Yanyi Chen, Edward M. Brown, Jenny J. Yang
JOURNAL OF BIOLOGICAL CHEMISTRY
(2010)
Article
Radiology, Nuclear Medicine & Medical Imaging
Lixia Wei, Shunyi Li, Jianhua Yang, Yiming Ye, Jin Zou, Liya Wang, Robert Long, Omar Zurkiya, Tiejun Zhao, Julian Johnson, Jingjuan Qiao, Wangda Zhou, Adriana Castiblanco, Natalie Maor, Yanyi Chen, Hui Mao, Xiaoping Hu, Jenny J. Yang, Zhi-Ren Liu
MOLECULAR IMAGING AND BIOLOGY
(2011)
Review
Chemistry, Multidisciplinary
Chen YanYi, Xue ShengHui, Zhou YuBin, Jenny Jie Yang
SCIENCE CHINA-CHEMISTRY
(2010)
Article
Biochemistry & Molecular Biology
Juan Zou, Mani Salarian, Yanyi Chen, You Zhuo, Nicole E. Brown, John R. Hepler, Jenny J. Yang
BIOCHEMICAL JOURNAL
(2017)
Meeting Abstract
Biochemistry & Molecular Biology
Zhigang Wu, Kuan Jiang, Hailiang Zhu, Cheng Ma, Zaikuan Yu, Lei Li, Wanyi Guan, Yunpeng Liu, He Zhu, Yanyi Chen, Shanshan Li, Jing Li, Jiansong Cheng, Lianwen Zhang, Peng George Wang
Article
Biochemical Research Methods
Saranya Krishnan, Shina Sasi, Preshobha Kodakkattumannil, Salima Al Senaani, Geetha Lekshmi, Martin Kottackal, Khaled M. A. Amiri
Summary: This study aimed to develop an efficient DNA extraction protocol suitable for diverse plant species and tissues. A reliable and consistent protocol was described for the extraction of high-quality DNA from difficult-to-extract plant species. The optimized protocol was successful in extracting high-quality DNA from various plant species and tissues, making it useful for genomic studies of recalcitrant plants.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Eisaku Hokazono, Saori Fukumoto, Takeshi Uchiumi, Susumu Osawa
Summary: This study proposes a method for detecting nucleic acid amplification using pyrophosphate, which requires only two reagents and an automated analyzer. The technique has high sensitivity and reproducibility, and can detect pyrophosphate within 10 minutes. Therefore, this method has the potential to be a new, rapid, and simple detection technique for amplified nucleic acids.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Drew S. Sowersby, L. Kevin Lewis
Summary: SURE electrophoresis is a new method for concentrating samples in gels, which allows efficient detection of highly dilute DNA samples. This approach generates single bands with enhanced signal intensities and minimal band broadening.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Hongyi Liang, Guoliang Yin, Guangxi Shi, Zhiyong Liu, Xiaofei Liu, Jingwei Li
Summary: The mechanism of Echinacoside (ECH) in treating breast cancer (BC) was explored through network pharmacology and experimental validation. It was found that ECH plays an important role in anti-BC by regulating the PI3K/AKT/HIF-1 alpha/VEGF signaling pathway, and it exhibits multi-target and multi-pathway effects.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Daniel S. Kantner, Emily Megill, Anna Bostwick, Vicky Yang, Carmen Bekeova, Alexandria Van Scoyk, Erin L. Seifert, Michael W. Deininger, Nathaniel W. Snyder
Summary: This study compared the results of different methods for measuring the amount of acetyl-Coenzyme A. The colorimetric ELISA kit did not produce interpretable results, while the fluorometric enzymatic kit showed comparable results to the LC-MS-based methods depending on the matrix and extraction conditions. LC-MS/MS and LC-HRMS methods produced well-aligned results, especially when using stable isotope-labeled internal standards.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Jingyan Xu, Hanying Tan, Xionghui Ma, Linjing Su, Zhi Zhang, Yuhao Xiong
Summary: This study investigates the co-catalytic capabilities of MoO3 nanosheets in enhancing the enzyme-like catalytic activity of a two-dimensional ultrathin Fe(III)-modified covalent triazine framework (Fe-CTF) under neutral pH conditions. The Fe-CTF/MoO3 co-catalytic system exhibits enzyme-mimicking activity and enables the development of a colorimetric method for glucose detection. Furthermore, a straightforward one-pot colorimetric method is established for screening XOD inhibitors.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Lichao Zhang, Kang Xiao, Xueting Wang, Liang Kong
Summary: A novel fusion technology was designed to identify FAD-binding sites, achieving the best results on two independent test datasets and outperforming existing methods significantly. The high performance and certainty of the method were demonstrated through statistical tests and cross-entropy loss analysis.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Abdulkadir Kilic, Mehmet Aslan, Abdulkadir Levent
Summary: This study developed a simple, rapid, sensitive, and selective voltammetric technique for the electrochemical characterization and detection of the highly risky drug Edoxaban. The optimized voltammetric method showed good analytical working range and was successfully applied to urine and tablet samples.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Su Hyun Kim, Nara Shin, Jong-Min Jeon, Jeong-Jun Yoon, Jeong Chan Joo, Hee Taek Kim, Shashi Kant Bhatia, Yung-Hun Yang
Summary: To address environmental issues caused by traditional plastics, bioplastics have gained attention as alternatives. Although bioplastics have better degradability, their degradation still takes longer than anticipated. This study proposes a novel screening method to identify bioplastic degraders faster, saving time and providing more quantitative data.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Irem Okman Kocoglu, Pinar Esra Erden, Esma Kilic
Summary: In this study, an electrochemical biosensor based on carbon nanofibers and ionic liquid modification was constructed for tyramine detection. The biosensor showed linear response, low detection limit, high sensitivity, and exhibited good reproducibility, stability, and anti-interference ability.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Liana U. Akhmetzianova, Timur M. Davletkulov, Assol R. Sakhabutdinova, Alexey Chemeris, Irek M. Gubaydullin, Ravil R. Garafutdinov
Summary: A new program called LAMPrimers iQ has been developed for high-quality LAMP primer design, and its advantages in providing higher specificity and reliable detection of viral RNA were validated using SARS-CoV-2 coronavirus RNA as a model target.
ANALYTICAL BIOCHEMISTRY
(2024)
Article
Biochemical Research Methods
Tommaso Pileri, Alberto Sinibaldi, Agostino Occhicone, Norbert Danz, Elena Giordani, Matteo Allegretti, Frank Sonntag, Peter Munzert, Patrizio Giacomini, Francesco Michelotti
Summary: This study developed a biosensing device based on one-dimensional photonic crystal to detect HER2 in breast cancer. The device combines label-free and fluorescence operation modes, allowing for real-time and accurate detection in less than 20 minutes. It offers a promising technique for combined label-free and fluorescence detection in disease diagnosis and therapeutic monitoring.
ANALYTICAL BIOCHEMISTRY
(2024)