News Item
Biochemistry & Molecular Biology
Kanishk Jain, Brian D. Strahl
Summary: High-throughput biochemical and biological analyses of disease-associated histone mutations reveal key residues in globular cores that affect chromatin remodeling, nucleosome stability, and stem cell pluripotency.
NATURE CHEMICAL BIOLOGY
(2021)
Article
Oncology
Li-Xia Peng, Ming-Dian Wang, Ping Xie, Jun-Ping Yang, Rui Sun, Li-Sheng Zheng, Yan Mei, Dong-Fang Meng, Xing-Si Peng, Yan-Hong Lang, Yuan-Yuan Qiang, Chang-Zhi Li, Liang Xu, Zhi-Jie Liu, Ling-Ling Guo, De-Huan Xie, Di-Tian Shu, Si-Ting Lin, Fei-Fei Luo, Bi-Jun Huang, Chao-Nan Qian
Summary: Nasopharyngeal carcinoma (NPC) originates in the nasopharyngeal epithelium and is known for its high metastatic rate. The study found elevated expression of LACTB in tumor tissues of NPC, which correlated with poorer patient survival. The role of LACTB in promoting NPC metastasis is dependent on the activation of ERBB3/EGFR-ERK signaling pathway.
Review
Biochemistry & Molecular Biology
Nitika Gaurav, Tatiana G. Kutateladze
Summary: Plant homeodomain (PHD) fingers are a well-known family of epigenetic readers that can recognize histone H3. They typically bind to the unmodified or methylated amino-terminal tail of H3, but recent studies have shown that some PHD fingers can also bind to non-histone proteins, H3 mimetics, and DNA. This review highlights the molecular mechanisms of PHD fingers' interactions with ligands other than the amino terminus of H3 and discusses the similarities and differences in their engagement with histone and non-histone binding partners.
TRENDS IN BIOCHEMICAL SCIENCES
(2023)
Article
Oncology
Miaomiao Yu, Yanjie Jia, Zhanchuan Ma, Donglei Ji, Chunyu Wang, Yingying Liang, Qiang Zhang, Huanfa Yi, Lei Zeng
Summary: This study reveals that the PHD finger of ASH1L non-selectively binds to the three methylation states of H3K4, providing insights into its recognition mechanism. Additionally, ASH1L is found to be crucial for the regulation of cell cycle and survival in prostate cancer cells.
FRONTIERS IN ONCOLOGY
(2022)
Review
Biochemistry & Molecular Biology
Veronica Uribe-Etxebarria, Jose Ramon Pineda, Patricia Garcia-Gallastegi, Alice Agliano, Fernando Unda, Gaskon Ibarretxe
Summary: The dental pulp of permanent human teeth contains stem cells known as Dental Pulp Stem Cells (DPSCs), which have the ability to differentiate into multiple cell lineages. The pluripotency core factors expressed by these cells, as well as the involvement of signaling pathways like Notch and Wnt, contribute to their stemness maintenance. Utilizing recombinant proteins, pharmacological modulators, serum-free media, and appropriate scaffolds, researchers can optimize the potency of DPSCs without genetic modification. This review highlights the mechanisms and regulatory pathways responsible for maintaining stemness in DPSCs, drawing interesting parallels with pluripotent stem cells.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemistry & Molecular Biology
Suman Abhishek, Waghela Deeksha, Eerappa Rajakumara
Summary: The study indicates that the PHD fingers of VIM1 and VIM3 cannot recognize histone H3, and modeling the structural changes in the VIM1 PHD reveals that these changes abolish H3 recognition.
Article
Chemistry, Multidisciplinary
Katherine I. Albanese, Marcey L. Waters
Summary: Recognition of trimethyllysine (Kme3) by reader proteins involves an aromatic cage binding mechanism, with some proteins containing a methionine (Met) residue instead of aromatic residues. Investigating the role of Met in binding Kme3, researchers found that Met contributes to binding through dispersion forces equally in both Kme3 and its neutral analog tert-butyl norleucine (tBuNle), indicating the lack of electrostatic interactions.
Article
Biochemistry & Molecular Biology
Jian Li, Lena Bergmann, Andreia Rafael de Almeida, Kimberly M. Webb, Madelaine M. Gogol, Philipp Voigt, Yingfang Liu, Huanhuan Liang, Michaela M. Smolle
Summary: The Ioc4 subunit of the Isw1b chromatin-remodeling complex interacts with pre-existing histones and DNA through its PWWP domain, facilitating chromatin remodeling during transcription. The Ioc4-PWWP domain promotes efficient remodeling by Isw1b in vitro and maintains ordered chromatin structure in vivo.
NUCLEIC ACIDS RESEARCH
(2022)
Article
Biochemistry & Molecular Biology
Karin Johanna Ferrari, Simona Amato, Roberta Noberini, Cecilia Toscani, Daniel Fernandez-Perez, Alessandra Rossi, Pasquale Conforti, Marika Zanotti, Tiziana Bonaldi, Simone Tamburri, Diego Pasini
Summary: The study found extensive cleavage of histone H3 N-terminal tails in differentiated cells of mouse intestinal epithelium, demonstrating that intestinal H3 clipping is the result of multiple proteolytic activities including Trypsins and Cathepsin L. These proteolytic activities are differentially affected by the PTM pattern of histone H3 tails.
NUCLEIC ACIDS RESEARCH
(2021)
Article
Multidisciplinary Sciences
Yuan Wang, Brandon H. Le, Jianqiang Wang, Chenjiang You, Yonghui Zhao, Mary Galli, Ye Xu, Andrea Gallavotti, Thomas Eulgem, Beixin Mo, Xuemei Chen
Summary: This study uncovers the regulatory mechanism of siRNA biogenesis and DNA methylation in specific genomic regions in RNA-directed DNA methylation (RdDM), and identifies the dual role of the ZMP protein in these processes, involving siRNA biogenesis and preventing Pol IV from targeting certain TEs and genes.
Article
Biochemistry & Molecular Biology
Mariola Ferreras-Gutierrez, Belen Chaves-Arquero, Amaia Gonzalez-Magana, Nekane Merino, Ignacio Amusategui-Mateu, Sonia Huecas, Francisco J. Medrano, Francisco J. Blanco
Summary: Proteins of the ING family regulate chromatin transcription by recruiting remodeling complexes to sites with H3K4me3 modification. ING3, an oncoprotein, facilitates histone acetylation and forms homodimers with an antiparallel coiled-coil fold. The crystal structure of ING3's PHD domain reveals its interaction with H3K4me3 and the impact of mutations on histone recognition.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2023)
Article
Cell Biology
Sureshkumar Perumal Srinivasan, Harshal Nemade, Anna Cherianidou, Luying Peng, Sara Cruz-Molina, Alvaro Rada-Iglesias, Agapios Sachinidis
Summary: This study reveals that Strip2 interacts with the nucleosome remodeling deacetylase/Tripartite motif-containing 28/Histone deacetylases/Histone-lysine N-methyltransferase SETDB1 (NuRD/TRIM28/HDACs/SETDB1) histone methyltransferase complex and acts as an epigenetic regulator of pluripotency and differentiation in embryonic stem cells by modulating DNA KRAB-ZFPs and the complex.
CELL DEATH DISCOVERY
(2022)
Article
Multidisciplinary Sciences
Faith Karanja, Subhshri Sahu, Sara Weintraub, Rajan Bhandari, Rebecca Jaszczak, Jason Sitt, Adrian Halme
Summary: In Drosophila melanogaster, the hormone ecdysone plays a dual role in promoting and suppressing wing imaginal disc regeneration. Lower concentrations of ecdysone enhance regenerative signaling, while higher concentrations inhibit regeneration through the expression of different splice isoforms. Ecdysone also promotes the expression of wingless, a key factor in regeneration and normal development, through a distinct regulatory pathway.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Multidisciplinary Sciences
Cong Zhang, Huaisong Lin, Yanqi Zhang, Qi Xing, Jingyuan Zhang, Di Zhang, Yancai Liu, Qianyu Chen, Tiancheng Zhou, Junwei Wang, Yongli Shan, Guangjin Pan
Summary: In this study, researchers found that the protein BRPF1 plays an important role in maintaining pluripotency in human embryonic stem cells (hESCs). BRPF1, along with H3K4me3 and H3K23ac, co-occupy the open chromatin and stemness genes in hESCs. Deletion of BRPF1 leads to decreased H3K23ac, closed chromatin accessibility on stemness genes, and hESC differentiation. The different modules of BRPF1 have varying impacts on its functions in hESCs.
Article
Cell Biology
Fang Zhang, Mert Icyuz, Andrzej Bartke, Liou Y. Sun
Summary: The study showed that GH intervention during early life significantly altered histone H3 markers in Ames dwarf mice, resulting in tissue-specific changes in H3 lysine methylation and acetylation. These findings indicate an important epigenetic mechanism by which hormonal signals during early life can influence aging and longevity in mammals.
Article
Oncology
Daniel Zingg, Julien Debbache, Rodrigo Pena-Hernandez, Ana T. Antunes, Simon M. Schaefer, Phil F. Cheng, Dario Zimmerli, Jessica Haeusel, Raquel R. Calcada, Eylul Tuncer, Yudong Zhang, Raphael Bossart, Kwok-Kin Wong, Konrad Basler, Reinhard Dummer, Raffaella Santoro, Mitchell P. Levesque, Lukas Sommer
Article
Biochemistry & Molecular Biology
Dario Zimmerli, Virginia Cecconi, Tomas Valenta, George Hausmann, Claudio Cantu, Gaetana Restivo, Jurg Hafner, Konrad Basler, Maries van den Broek
Article
Biology
Maria L. Spletter, Christiane Barz, Assa Yeroslaviz, Xu Zhang, Sandra B. Lemke, Adrien Bonnard, Erich Brunner, Giovanni Cardone, Konrad Basler, Bianca H. Habermann, Frank Schnorrer
Article
Cardiac & Cardiovascular Systems
Yidong Wang, Pengfei Lu, Bingruo Wu, Dario F. Riascos-Bernal, Nicholas E. S. Sibinga, Tomas Valenta, Konrad Basler, Bin Zhou
JOURNAL OF MOLECULAR AND CELLULAR CARDIOLOGY
(2018)
Article
Multidisciplinary Sciences
Bahar Degirmenci, Tomas Valenta, Slavica Dimitrieva, George Hausmann, Konrad Basler
Article
Biochemistry & Molecular Biology
Nikolaos Doumpas, Franziska Lampart, Mark D. Robinson, Antonio Lentini, Colm E. Nestor, Claudio Cantu, Konrad Basler
Article
Cell Biology
Claudio Cantu, Anastasia Felker, Dario Zimmerli, Karin D. Prummel, Elena M. Cabello, Elena Chiavacci, Kevin M. Mendez-Acevedo, Lucia Kirchgeorg, Sibylle Burger, Jorge Ripoll, Tomas Valenta, George Hausmann, Nathalie Vilain, Michel Aguet, Alexa Burger, Daniela Panakova, Konrad Basler, Christian Mosimann
GENES & DEVELOPMENT
(2018)
Article
Multidisciplinary Sciences
Zeynep Kabakci, Simon Kappeli, Claudio Cantu, Lasse D. Jensen, Christiane Konig, Janine Toggweiler, Christian Gentili, Giovanni Ribaudo, Giuseppe Zagotto, Konrad Basler, Lorenzo A. Pinna, Giorgio Cozza, Stefano Ferrari
SCIENTIFIC REPORTS
(2019)
Article
Cell & Tissue Engineering
Sandra Varum, Arianna Baggiolini, Luis Zurkirchen, Zeynep Kalender Atak, Claudio Cantu, Elisa Marzorati, Raphael Bossart, Jasper Wouters, Jessica Haeusel, Eyluel Tuncer, Daniel Zingg, Dominiek Veen, Nessy John, Marcel Balz, Mitchell P. Levesque, Konrad Basler, Stein Aerts, Nicola Zamboni, Reinhard Dummer, Lukas Sommer
Article
Cell Biology
Leila Shokri, Sachi Inukai, Antonina Hafner, Kathryn Weinand, Korneel Hens, Anastasia Vedenko, Stephen S. Gisselbrecht, Riccardo Dainese, Johannes Bischof, Edy Furger, Jean-Daniel Feuz, Konrad Basler, Bart Deplancke, Martha L. Bulyk
Article
Biology
Valerie S. Salazar, Luciane P. Capelo, Claudio Cantu, Dario Zimmerli, Nehal Gosalia, Steven Pregizer, Karen Cox, Satoshi Ohte, Marina Feigenson, Laura Gamer, Jeffry S. Nyman, David J. Carey, Aris Economides, Konrad Basler, Vicki Rosen
Article
Multidisciplinary Sciences
Luis Zurkirchen, Sandra Varum, Sonja Giger, Annika Klug, Jessica Hausel, Raphael Bossart, Martina Zemke, Claudio Cantu, Zeynep Kalender Atak, Nicola Zamboni, Konrad Basler, Lukas Sommer
NATURE COMMUNICATIONS
(2019)
Article
Multidisciplinary Sciences
Fabien Cannac, Chao Qi, Julia Falschlunger, George Hausmann, Konrad Basler, Volodymyr M. Korkhov
Article
Biochemistry & Molecular Biology
Michael David Bruegger, Tomas Valenta, Hassan Fazilaty, George Hausmann, Konrad Basler
Article
Biology
Erich Brunner, Ryohei Yagi, Marc Debrunner, Dezirae Beck-Schneider, Alexa Burger, Eliane Escher, Christian Mosimann, George Hausmann, Konrad Basler
LIFE SCIENCE ALLIANCE
(2019)