Article
Cell Biology
Wei Yuan, Arman Aksit, Rinse de Boer, Arjen M. Krikken, Ida J. van der Klei
Summary: In the yeast Hansenula polymorpha, the proteins Pex11 and Pex23 family are important for the formation of peroxisome-ER contact sites, which are involved in lipid transfer and peroxisomal membrane expansion. The contact site protein Vps13 was identified as essential for peroxisome biogenesis in cells lacking Pex11, Pex23, or Pex24. Additionally, Vps13 plays a redundant role in lipid transfer from the ER to peroxisomes in cells with reduced peroxisome-ER contact sites.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Review
Cell Biology
Pin-Chao Liao, Emily J. Yang, Taylor Borgman, Istvan R. Boldogh, Cierra N. Sing, Theresa C. Swayne, Liza A. Pon
Summary: Lipid droplets (LDs) play important roles not only as storage sites for lipids but also as central regulators of metabolism and organelle quality control. Membrane contact sites (MCS) between LDs and other organelles are crucial for these functions. This review summarizes recent findings on the mechanisms and functions of MCS between LDs and mitochondria, ER, and lysosomes/vacuoles, as well as the role of the cytoskeleton in promoting LD MCS through its function in LD movement and distribution in response to environmental cues.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Article
Cell Biology
Rafael M. Kochaj, Elisa Martelletti, Neil J. Ingham, Annalisa Buniello, Bebiana C. Sousa, Michael J. O. Wakelam, Andrea F. Lopez-Clavijo, Karen P. Steel
Summary: Mice with Pex3 mutations show normal auditory development followed by progressive increase in auditory response thresholds. The disruption of synapses below inner hair cells is the only structural defect detected in the cochlea. Local reduction in plasmalogens in the inner ear of Pex3 mouse mutants is comparable to the systemic plasmalogen reduction reported in human peroxisome biogenesis disorders.
Article
Cell Biology
Yuxiang J. Huang, Daniel J. Klionsky
Summary: Research has found that Atg11 plays different roles in selective macroautophagy/autophagy between yeast and mammals, suggesting that it may have gained additional functions in evolution.
Editorial Material
Cell Biology
Shree Padma Metur, Daniel J. Klionsky
Summary: This study reconstitutes the initial steps of autophagosome biogenesis during selective autophagy using autophagy factors purified from yeast, demonstrating that Atg9 vesicles play crucial roles in recruiting the autophagy machinery and establishing membrane contact sites for lipid transfer during autophagosome biogenesis.
Article
Cell Biology
Kathryn W. Li, Michelle S. Lu, Yuichiro Iwamoto, David G. Drubin, Ross T. A. Pedersen
Summary: Organelle inheritance in budding yeast follows a specific order, starting with the inheritance of cortical endoplasmic reticulum and peroxisomes, followed by vacuoles, mitochondria, and finally the nucleus and perinuclear endoplasmic reticulum. Even when the cell cycle is disrupted, organelle inheritance still occurs, indicating that organelle inheritance is independent of the completion of S-phase.
JOURNAL OF CELL SCIENCE
(2021)
Editorial Material
Cell Biology
Kelsie A. Leary, Wayne D. Hawkins, Devika Andhare, Hana Popelka, Daniel J. Klionsky, Michael J. Ragusa
Summary: A recent study has shown that Atg23 is a protein that binds to Atg9 and is involved in the trafficking of Atg9 vesicles. The study also revealed that Atg23 forms elongated dimers and mutations can disrupt dimer formation, resulting in a stable monomer. Expression of the monomeric Atg23 in yeast lacking Atg23 leads to abnormalities in autophagy and the cytoplasm-to-vacuole targeting pathway.
Article
Multidisciplinary Sciences
Chantelle L. Leveille, Caitlin E. Cornell, Alexey J. Merz, Sarah L. Keller
Summary: Membrane phase separation in vacuoles of budding yeast during the cell's growth cycle is regulated by physical conditions and is essential for yeast survival. The transition temperature of phase separation is adapted by cells to maintain proximity to the transition. Depletion of ergosterol, the major sterol in yeast, leads to the formation of membrane domains, contradicting previous assumptions.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Biology
Cheng-Wen He, Xue-Fei Cui, Shao-Jie Ma, Qin Xu, Yan-Peng Ran, Wei-Zhi Chen, Jun-Xi Mu, Hui Li, Jing Zhu, Qingqiu Gong, Zhiping Xie
Summary: Our study reveals a unique vacuolar membrane protein degradation process that depends on vacuole-associated Atg8 downstream of ESCRTs. We also identify a specific role of Hfl1, a conserved protein, in membrane targeting of Atg8. These findings contribute to a better understanding of the molecular mechanisms involved in vacuole degradation processes.
Article
Biochemistry & Molecular Biology
Patrick J. Duckney, Pengwei Wang, Patrick J. Hussey
Summary: The interactions between organelles in plants are regulated by specialized tethering proteins, and their mechanisms and importance are being increasingly understood.
Article
Microbiology
Celine Yen Ling Choo, Pei-Ching Wu, Jonar I. Yago, Kuang-Ren Chung
Summary: In this study, the researchers discovered a microbody called peroxisomes that are involved in fatty acid and hydrogen peroxide metabolism in eukaryotes. They found that the AaPex3 gene is responsible for peroxisome biogenesis and resistance to peroxides and superoxide-generating compounds. AaPex3 also affects gene expression related to ROS resistance and is involved in maintaining cell wall integrity and various important functions in the phytopathogenic fungus.
MICROBIOLOGICAL RESEARCH
(2023)
Review
Cell Biology
Fei Wu, Rinse de Boer, Ida J. van der Klei
Summary: Membrane contact sites are regions of close proximity between two membranes, and their association is mediated by protein-protein and/or protein-lipid interactions. Peroxisomal membrane contact sites have received little attention compared to other organelles, but recent studies have greatly improved our understanding of their occurrence, composition, and function. Yeast studies have been particularly valuable in advancing our knowledge in this area.
JOURNAL OF CELL SCIENCE
(2023)
Article
Cell Biology
Ying Yang, Damian Gatica, Xu Liu, Runliu Wu, Rui Kang, Daolin Tang, Daniel J. Klionsky
Summary: This study reports the role of uORF-mediated translational control in regulating multiple Atg proteins in yeast and human cells. These findings suggest that uORF-mediated translational control is a widely used mechanism among ATG genes and provide a model for how some ATG genes bypass translational suppression under stress conditions to maintain proper autophagy levels.
Article
Cell Biology
Hiren Banerjee, Paul LaPointe, Gary Eitzen, Richard A. Rachubinski
Summary: The study identified Pex3 as the essential regulator of glycosome biogenesis, suggesting that small molecule inhibitors that disrupt Pex3-Pex19 interaction could help accelerate drug development for treating Trypanosoma infections.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Review
Biochemistry & Molecular Biology
Shu-min Ying, Jing Wang, Liu-E Gong, Jiao-yu Wang, Guo-chang Sun
Summary: The peroxisome is a conserved organelle in eukaryotes that participates in various biochemical metabolic processes. Maintaining the homeostasis of peroxisomes is essential for cell structure and function integrity, and imbalances can lead to diseases.
PROGRESS IN BIOCHEMISTRY AND BIOPHYSICS
(2023)
Article
Biochemistry & Molecular Biology
Ritika Singh, Selvambigai Manivannan, Arjen M. Krikken, Rinse de Boer, Nicola Bordin, Damien P. Devos, Ida J. van der Klei
Article
Cell Biology
Fei Wu, Rinse de Boer, Arjen M. Krikken, Arman Aksit, Nicola Bordin, Damien P. Devos, Ida J. van der Klei
JOURNAL OF CELL SCIENCE
(2020)
Article
Biology
Aleksandra Zielinska, Abigail Savietto, Anabela de Sousa Borges, Denis Martinez, Melanie Berbon, Joel R. Roelofsen, Alwin M. Hartman, Rinse de Boer, Ida J. Van der Klei, Anna K. H. Hirsch, Birgit Habenstein, Marc Bramkamp, Dirk-Jan Scheffers
Article
Cell Biology
Arjen M. Krikken, Huala Wu, Rinse de Boer, Damien P. Devos, Tim P. Levine, Ida J. van der Klei
JOURNAL OF CELL BIOLOGY
(2020)
Article
Cell Biology
Renate L. M. Jansen, Carlos Santana-Molina, Marco van den Noort, Damien P. Devos, Ida J. van der Klei
Summary: PEX genes encode proteins involved in peroxisome biogenesis and proliferation. A comparative genomics approach was used to clarify the evolutionary relationships between the 37 known PEX proteins in a representative set of eukaryotes, defining the core set of PEX proteins required for peroxisome formation. The molecular processes in peroxisome biogenesis in different organisms were analyzed, showing that peroxisomes are not static organelles in eukaryotic evolution.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Article
Cell Biology
Heike Rampelt, Florian Wollweber, Mariya Licheva, Rinse de Boer, Inge Perschil, Liesa Steidle, Thomas Becker, Maria Bohnert, Ida van der Klei, Claudine Kraft, Martin van der Laan, Nikolaus Pfanner
Summary: Cristae, invaginations of the mitochondrial inner membrane, are important for oxidative phosphorylation. The study reveals that Mic10, a subunit of MICOS, also interacts with the F1Fo-ATP synthase, and it plays distinct roles in cristae shaping and respiratory adaptation and growth.
Article
Cell Biology
Wei Yuan, Arman Aksit, Rinse de Boer, Arjen M. Krikken, Ida J. van der Klei
Summary: In the yeast Hansenula polymorpha, the proteins Pex11 and Pex23 family are important for the formation of peroxisome-ER contact sites, which are involved in lipid transfer and peroxisomal membrane expansion. The contact site protein Vps13 was identified as essential for peroxisome biogenesis in cells lacking Pex11, Pex23, or Pex24. Additionally, Vps13 plays a redundant role in lipid transfer from the ER to peroxisomes in cells with reduced peroxisome-ER contact sites.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Article
Cell Biology
Fei Wu, Ida J. van der Klei
Summary: In this study, the structure and function of the ER protein Pex32 in the yeast Hansenula polymorpha were analyzed. The N-terminal transmembrane domain of Pex32 was found to be responsible for sorting, while the C-terminal DysF domain was required for concentrating Pex32 at ER-peroxisome contact sites and binding to peroxisomes. Additionally, the levels of Pex11 were found to be reduced in pex32 cells, which may explain the decrease in peroxisome numbers.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Renate L. M. Jansen, Marco van den Noort, Arjen M. Krikken, Chen Bibi, Astrid Boehm, Maya Schuldiner, Einat Zalckvar, Ida J. van der Klei
Summary: The mechanism of peroxisomal membrane protein targeting remains poorly understood, with only two proteins believed to be involved and no consensus targeting sequence. Pex19 is thought to bind these proteins in the cytosol and is then recruited by Pex3 at the peroxisomal surface, but how the protein is inserted is still unknown. This study found that Pxa1, a peroxisomal ABC transporter, requires both Pex3 and Pex19 for sorting, suggesting the existence of multiple sorting pathways.
BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH
(2023)
Review
Cell Biology
Fei Wu, Rinse de Boer, Ida J. van der Klei
Summary: Membrane contact sites are regions of close proximity between two membranes, and their association is mediated by protein-protein and/or protein-lipid interactions. Peroxisomal membrane contact sites have received little attention compared to other organelles, but recent studies have greatly improved our understanding of their occurrence, composition, and function. Yeast studies have been particularly valuable in advancing our knowledge in this area.
JOURNAL OF CELL SCIENCE
(2023)
Article
Biochemistry & Molecular Biology
G. F. Senguel, R. Mishra, E. Candiello, P. Schu
Summary: AP2 forms AP2 CCV with clathrin and other coat proteins, and synapses contain different types of CCV. The stability and composition of CCV are regulated by various factors, including Hsc70 and phosphorylation patterns. The knockout of the AP1/O1B complex disrupts synaptic vesicle recycling and endosomal protein sorting, leading to upregulation of endocytosis. Stable CCV, termed stCCV, have distinct characteristics and specialized functions in synaptic plasticity. The phosphorylation of Hsc70 and the levels of kinases play a crucial role in regulating the stability and disassembly of clathrin in CCV.
BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH
(2024)
Article
Biochemistry & Molecular Biology
Martin Fluck, Colline Sanchez, Vincent Jacquemond, Christine Berthier, Marie-Noelle Giraud, Daniel Jacko, Kathe Bersiner, Sebastian Gehlert, Guus Baan, Richard T. Jaspers
Summary: Enhancing CaMKII signaling improves fatigue resistance and contractile characteristics of skeletal muscle by enhancing calcium release.
BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH
(2024)
Letter
Biochemistry & Molecular Biology
Federica Coppola, Sara Monaci, Alessandro Falsini, Carlo Aldinucci, Irene Filippi, Daniela Rossi, Fabio Carraro, Antonella Naldini
Summary: The adaptor protein p62 plays a crucial role in maintaining the survival of dendritic cells (DCs) under hypoxic conditions by preserving Erk1/2 phosphorylation and reducing AMPK activation, thus extending their lifespan to ensure their functions in hypoxic microenvironments.
BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH
(2024)
Article
Biochemistry & Molecular Biology
Jenifer Pendiuk Goncalves, Jorvani Cruz Villarreal, Sierra A. Walker, Xuan Ning Sharon Tan, Chad Borges, Joy Wolfram
Summary: This study used a mass spectrometry-based approach to assess the differences in glycan features between extracellular vesicles (EVs) and originating cells. The results showed that EVs selectively enriched specific glycan features, particularly those associated with binding to the extracellular matrix. The study also found differences in EV glycan sorting between different metastatic cell lines and mouse models, indicating a potential role of glycan diversity in the metastatic process.
BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH
(2024)
Article
Biochemistry & Molecular Biology
De-ao Gong, Peng Zhou, Wen-yi Chang, Jia-yao Yang, Yan-lai Zhang, Ai-long Huang, Ni Tang, Kai Wang
Summary: Liver cancer, ranked sixth globally, is a major contributor to cancer-related mortality. Metastasis is the main cause of treatment failure and deaths in liver cancer. The SPOP-CREB5-MET axis plays a significant role in liver cancer metastasis.
BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH
(2024)
Article
Biochemistry & Molecular Biology
Ning Huang, Jun Tang, Xiaoyao Yi, Maoxin Zhang, Bin Li, Yuan Cheng, Jin Chen
Summary: This study reveals that glioma-derived S100A9 can induce microglial M2 polarization, inhibit CD8+ T lymphocytes, and promote immunosuppression. The mechanism is related to the interaction with alpha v133 integrin and subsequent activation of AKT1 in microglia. The expression of S100A9 is positively associated with CD206 expression and negatively correlated with CD8+ T lymphocyte accumulation in the TME, suggesting a potential role of S100A9 in regulating the tumor microenvironment and immune evasion in glioma.
BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH
(2024)
Article
Biochemistry & Molecular Biology
Yomna S. Abd El-Aziz, Matthew J. McKay, Mark P. Molloy, Betty McDowell, Elizabeth Moon, Loretta Sioson, Amy Sheen, Angela Chou, Anthony J. Gill, Patric J. Jansson, Sumit Sahni
Summary: This study identified a novel combination of autophagy inhibitors that can effectively inhibit the proliferation of oral squamous cell carcinoma (OSCC) cells, including both chemosensitive and chemoresistant cells. This research is important for the development of new therapies for advanced OSCC tumors.
BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH
(2024)
Article
Biochemistry & Molecular Biology
Luojia Liu, Xiaoqiang Liu, Ying Chen, Meng Kong, Jinghong Zhang, Min Jiang, Hongling Zhou, Jinrui Yang, Xu Chen, Ze Zhang, Chao Wu, Xupin Jiang, Jiaping Zhang
Summary: Our study revealed that the Paxillin/HDAC6 signaling pathway regulates microtubule acetylation in electric field-guided keratinocyte migration.
BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH
(2024)
Article
Biochemistry & Molecular Biology
Julia Weikum, Jeroen F. van Dyck, Saranya Subramani, David P. Klebl, Merete Storflor, Stephen P. Muench, Soren Abel, Frank Sobott, J. Preben Morth
Summary: The study reveals the complex interaction between bacterial magnesium transporter A (MgtA) and cardiolipin 18:1 and cardiolipin 16:0, highlighting the importance of lipid environment in protein activity and stability. Further understanding of Mg2+ homeostasis in bacteria will provide insights into bacterial infections.
BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH
(2024)
Article
Biochemistry & Molecular Biology
Sumit Kinger, Yuvraj Anandrao Jagtap, Ankur Rakesh Dubey, Prashant Kumar, Akash Choudhary, Rohan Dhiman, Vijay Kumar Prajapati, Deepak Chitkara, Krishna Mohan Poluri, Amit Mishra
Summary: Efficient protein synthesis and quality control mechanisms are crucial for maintaining proteostasis and preventing neurodegeneration. This study demonstrates that treating cells with Lanosterol can enhance the proteolytic activity of Proteasome and promote the removal of misfolded proteins, suggesting a potential therapeutic approach for abnormal protein accumulation.
BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH
(2024)
Article
Biochemistry & Molecular Biology
Karolina Stepien, Adrianna Skoneczna, Monika Kula-Maximenko, Lukasz Jurczyk, Mateusz Molon
Summary: The replication of DNA requires a complex machinery called the replisome, which is highly conserved across species. One crucial component of the replisome is the CMG helicase complex, which unwinds DNA and coordinates the assembly and function of other replisome components. In this study, the impact of the absence of one copy of the CMG complex genes on the physiology and aging of yeast cells was investigated. The findings showed disruptions in the cell cycle, extended doubling times, and alterations in the biochemical profile of these cells. Importantly, it was found that heterozygous cells for CMG helicase genes exhibited increased reproductive potential and delayed aging. The study also highlighted potential therapeutic targets for cancer treatment using yeast.
BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH
(2024)
Article
Biochemistry & Molecular Biology
Nishadh Rathod, Guadalupe Guerrero-Serna, Howard S. Young, L. Michel Espinoza-Fonseca
Summary: This study reveals that replacing Lys27 with Asn enhances the inhibitory potency of MLN without affecting SERCA's affinity for Ca2+. The findings suggest that the SERCA site modulating Ca2+ affinity also functions as a catalytic activity switch.
BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH
(2024)
Article
Biochemistry & Molecular Biology
Can Jiang, Chunyang Zhang, Min Dai, Fuyan Wang, Sa Xu, Dan Han, Yanyan Wang, Yajie Cao, Yanyan Liang, Ziyu Zhang, Lina Yan, Yujun Shen, Kewu He, Yuxian Shen, Jun Liu
Summary: The phosphorylation of p65 and the expression of SUMO1 are increased in cancer tissues of HCC patients, and there is a positive correlation between SUMO1 and phosphorylated p65. SUMOylation of p65 by SUMO1 promotes p65 nuclear import and enhances NF-xB activity. Both SUMOylation and phosphorylation of p65 increase the viability and invasion of hepatoma cells, and decrease cell apoptosis.
BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH
(2024)
Article
Biochemistry & Molecular Biology
Ming-Fo Hsu, Yoshihiro Ito, Jai Prakash Singh, Shu-Fang Hsu, Alan Wells, Kuang-Yu Jen, Tzu-Ching Meng, Fawaz G. Haj
Summary: This study identified alpha-actinin4 as a novel substrate of PTP1B in podocytes and demonstrated their interaction in regulating podocyte function. Targeting PTP1B and alpha-actinin4 could be a potential therapeutic approach for podocyte injury.
BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH
(2024)
Article
Biochemistry & Molecular Biology
Paulo F. V. Bizerra, Eduardo H. Gilglioni, Hang Lam Li, Simei Go, Ronald P. J. Oude Elferink, Arthur J. Verhoeven, Jung -Chin Chang
Summary: This study investigates the role of cyclic AMP (cAMP) in glycogen metabolism and reveals that cAMP regulates glycogenolysis in opposite directions depending on its site of synthesis within cells and downstream effectors. The canonical tmAC-cAMP-PKA signaling promotes glycogenolysis, while the non-canonical sAC-cAMP-Epac1 signaling suppresses glycogenolysis. This highlights the importance of cAMP microdomain organization for distinct metabolic regulation.
BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH
(2024)