Article
Multidisciplinary Sciences
Joana Esteves de Lima, Reem Bou Akar, Leo Machado, Yuefeng Li, Bernadette Drayton-Libotte, F. Jeffrey Dilworth, Frederic Relaix
Summary: The authors demonstrate that HIRA, a H3.3 histone chaperone, establishes the chromatin landscape required for skeletal muscle cell identity.
NATURE COMMUNICATIONS
(2021)
Article
Multidisciplinary Sciences
Xiaowei Xu, Shoufu Duan, Xu Hua, Zhiming Li, Richard He, Zhiguo Zhaang
Summary: This study reveals that both parental H3.1 and H3.3 are stably inherited during mitotic cell division in mouse embryonic stem cells, and this process involves histone chaperones Mcm2, Pole3, and Pole4.
NATURE COMMUNICATIONS
(2022)
Article
Developmental Biology
Rowena Smith, Sue J. Pickering, Anna Kopakaki, K. J. Thong, Richard A. Anderson, Chih-Jen Lin
Summary: Research has shown that the HIRA complex plays an important role in male pronucleus formation and this role is consistent from mice to humans. Loss of Cabin1 and Ubn1 in mice leads to abnormal 1PN zygotes. Overexpression of HIRA can rescue the abnormal phenotype caused by Hira mutations.
Article
Biochemistry & Molecular Biology
Alberto Gatto, Audrey Forest, Jean-Pierre Quivy, Genevieve Almouzni
Summary: This study reveals the dual deposition mode of histone variants H3.1 and H3.3 in human cells during S phase, which ensures a stable marking with H3.3 flanked on both sides by H3.1. The H3.1/H3.3 boundaries correspond to the initiation zones of early origins, and the HIRA-dependent deposition of H3.3 plays a crucial role in preserving these boundaries and contributing to the chromatin-based definition of early replication zones.
Article
Gastroenterology & Hepatology
Maelle Locatelli, Jean-Pierre Quivy, Fleur Chapus, Maud Michelet, Judith Fresquet, Sarah Maadadi, Amel Neila Aberkane, Audrey Diederichs, Julie Lucifora, Michel Rivoire, Genevieve Almouzn, Barbara Testoni, Fabien Zoulim
Summary: This study revealed that the formation of cccDNA during early HBV infection requires the deposition of histone variant H3.3 via the HIRA-dependent pathway, independently from de novo viral protein expression, and simultaneous with repair of the cccDNA precursor.
CELLULAR AND MOLECULAR GASTROENTEROLOGY AND HEPATOLOGY
(2022)
Article
Biology
Constance Kleijwegt, Florent Bressac, Coline Seurre, Wilhelm Bouchereau, Camille Cohen, Pascale Texier, Thomas Simonet, Laurent Schaeffer, Patrick Lomonte, Armelle Corpet
Summary: Promyelocytic leukemia nuclear bodies (PML NBs) play a crucial role in genome function by regulating the distribution of HIRA and histone dynamics. Additionally, they regulate the transcription of interferon-stimulated genes (ISGs) and H3.3 deposition mediated by HIRA during inflammatory response.
Article
Biochemistry & Molecular Biology
Masaki Kikuchi, Satoshi Morita, Mie Goto, Masatoshi Wakamori, Kazushige Katsura, Kazuharu Hanada, Mikako Shirouzu, Takashi Umehara
Summary: In this study, the researchers established a nucleosome core particle (NCP) array containing histones with specific acetylated residues and compared the Kac-binding preferences of human YEATS domains. They found that the Kac-binding affinity of AF9-YEATS increased with the number of acetylated residues in the histone tail.
JOURNAL OF BIOLOGICAL CHEMISTRY
(2022)
Article
Biochemistry & Molecular Biology
Masaki Kikuchi, Satoshi Morita, Mie Goto, Masatoshi Wakamori, Kazushige Katsura, Kazuharu Hanada, Mikako Shirouzu, Takashi Umehara
Summary: In this study, AF9-YEATS was found to have differential binding preferences for specific Kac positions and multiple Kac in histone H3. Crystal structures revealed that the aromatic cage of AF9-YEATS recognized the acetylated K8 residue, while E57 and D103 outside of the aromatic cage interacted with acetylated K5 and K12. Additionally, mutating E57 to alanine reduced the binding affinity of AF9-YEATS for multiacetylated H4.
JOURNAL OF BIOLOGICAL CHEMISTRY
(2021)
Article
Cell Biology
Csenge Gal, Grace A. Cochrane, Brian A. Morgan, Charalampos Rallis, Juerg Bahler, Simon K. Whitehall
Summary: This study reveals that the HIRA histone chaperone complex is necessary for the reversibility and longevity of quiescence induced by nitrogen starvation in Schizosaccharomyces pombe. The HIRA protein Hip1 is not required for entry into G0 or autophagy induction, but is critical for the induction of MBF transcription factor-dependent genes essential for S phase, and for efficient exit from quiescence.
Article
Developmental Biology
Rowena Smith, Andrej Susor, Hao Ming, Janet Tait, Marco Conti, Zongliang Jiang, Chih-Jen Lin
Summary: Oocyte developmental competence and embryogenesis rely on the H3.3 chaperone Hira complex, which regulates chromatin condensation and transcriptional quiescence.
Article
Biochemistry & Molecular Biology
Elodie Layat, Marie Bourcy, Sylviane Cotterell, Julia Zdzieszynska, Sophie Desset, Celine Duc, Christophe Tatout, Christophe Bailly, Aline V. Probst
Summary: Histone chaperones play a crucial role in dry seed embryo, with the loss of HIRA responsible for H3.3 deposition leading to increased chromatin accessibility and seed dormancy. HIRA also impacts seed germination efficiency and seed adaptability to unfavorable environmental conditions.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Review
Biochemistry & Molecular Biology
Isabelle A. Engelberg, Caroline A. Foley, Lindsey James, Stephen Frye
Summary: Chemical probes targeting reader proteins are emerging as potential therapeutic targets for a wide range of diseases, including cancer and inflammation-related pathologies. Overcoming challenges associated with antagonizing reader domains involves targeting strategies such as using peptidomimetic ligands and protein degraders.
CURRENT OPINION IN CHEMICAL BIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Ann K. Hogan, Kizhakke M. Sathyan, Alexander B. Willis, Sakshi Khurana, Shashank Srivastava, Ewelina Zasadzinska, Alexander S. Lee, Aaron O. Bailey, Matthew N. Gaynes, Jiehuan Huang, Justin Bodner, Celeste D. Rosencrance, Kelvin A. Wong, Marc A. Morgan, Kyle P. Eagen, Ali Shilatifard, Daniel R. Foltz
Summary: Histone chaperones, such as UBR7, play a crucial role in regulating the stability and supply of post-nucleosomal histone complexes. UBR7 interacts with NASP and histones to promote reincorporation of post-nucleosomal H3 complexes, opposing the histone storage functions of NASP. The absence of UBR7 leads to accumulation of NASP-bound post-nucleosomal histones and depletion of H3K4me3-modified histones in chromatin.
Article
Multidisciplinary Sciences
Guojun Yu, Yongwei Zhang, Varun Gupta, Jinghang Zhang, Thomas MacCarthy, Zhi Duan, Matthew D. Scharff
Summary: The H3.3 histone variant and its chaperone HIRA play important roles in regulating somatic hypermutation (SHM) of immunoglobulin variable regions in human B cells by affecting the expression levels of active transcription factors, transcription at the IgH locus, and chromatin accessibility. Furthermore, the H3.3G34V mutant inhibits SHM in Ramos cells by reducing the recruitment of elongation factors and ZMYND11 at the IgH variable and downstream switching regions. This study extends our understanding of how transcription-associated chromatin structure and accessibility contribute to SHM in human B cells.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Pharmacology & Pharmacy
Peipei Wu, Su-Jiun Lin, Danqi Chen, Chunyuan Jin
Summary: Arsenic exposure is associated with increased cancer risk, and epigenetic mechanisms play a crucial role in arsenic-mediated carcinogenesis. Our study identifies the protein MCM2, a histone chaperone, as a key factor in the disruption of H3.3 deposition caused by the polyadenylation of H3.1 mRNA under conditions of arsenic exposure. Our findings suggest that changes in the interaction between MCM2 and H3.3, due to polyadenylation of H3.1 mRNA, may play a pivotal role in arsenic-induced carcinogenesis.
TOXICOLOGY AND APPLIED PHARMACOLOGY
(2023)
Article
Pediatrics
Olachi J. Mezu-Ndubuisi, Yong-Seok Song, Erica Macke, Hailey Johnson, Ginika Nwaba, Akihiro Ikeda, Nader Sheibani
Summary: The study investigated the expression of Vegfa isoforms during oxygen-induced ischemic retinopathy (OIR), revealing that Vegfa(164a), Vegfa(164b), and Vegfr1 were overexpressed in OIR mice, leading to abnormal signaling and angiogenesis. Further research into the mechanisms of Vegf dysregulation may lead to novel therapies for ROP and other proliferative retinopathies.
PEDIATRIC RESEARCH
(2022)
Review
Chemistry, Multidisciplinary
Mina Hajizadeh, Zainab Moosavi-Movahedi, Nader Sheibani, Ali A. Moosavi-Movahedi
Summary: This review investigates the importance of suicide enzyme inhibition in drug design, treatment, and industrial applications. The development of biomimetic artificial enzymes to prevent inhibition and the classification of suicide enzyme inactivation classes based on target enzyme groups were highlighted as key points to address severe diseases.
JOURNAL OF THE IRANIAN CHEMICAL SOCIETY
(2022)
Article
Infectious Diseases
Ashutosh Arun, Kayla J. Rayford, Ayorinde Cooley, Tanu Rana, Girish Rachakonda, Fernando Villalta, Siddharth Pratap, Maria F. Lima, Nader Sheibani, Pius N. Nde
Summary: The protozoan parasite Trypanosoma cruzi uses the Wnt/beta-catenin and Hippo signaling pathways to infect host cells, with the protein TSP1 playing an important role. In the absence of TSP1, parasite infection leads to increased nuclear colocalization of beta-catenin/YAP, and inhibiting the beta-catenin pathway can significantly reduce parasite infectivity.
PLOS NEGLECTED TROPICAL DISEASES
(2022)
Article
Biology
Shoujian Wang, Ismail S. Zaitoun, Soesiawati R. Darjatmoko, Nader Sheibani, Christine M. Sorenson
Summary: Inflammation plays a crucial role in the pathogenesis of nAMD, and the expression of Bim is important for resolving inflammation.
Article
Biotechnology & Applied Microbiology
Sedigheh Abedanzadeh, Zainab Moosavi-Movahedi, Nader Sheibani, Ali A. Moosavi-Movahedi
Summary: This passage introduces nanozymes as alternatives to natural enzymes in industrial, medical, and biological fields, with a focus on designing enzyme models based on supramolecular scaffolds and the importance of supramolecular chemistry in understanding enzyme mechanisms.
BIOCHEMICAL ENGINEERING JOURNAL
(2022)
Article
Biotechnology & Applied Microbiology
Sathya Neelature Sriramareddy, Fernanda Faiao-Flores, Michael F. Emmons, Biswarup Saha, Srikumar Chellappan, Clayton Wyatt, Inna Smalley, Jonathan D. Licht, Michael A. Durante, J. William Harbour, Keiran S. M. Smalley
Summary: This study investigates the role of HDAC11 in uveal melanoma and finds that it plays a crucial role in therapy adaptation by modulating the YAP/TAZ signaling pathway, leading to the escape of MEKi therapy.
CANCER GENE THERAPY
(2022)
Article
Cell Biology
Christine M. Sorenson, Mitra Farnoodian, Shoujian Wang, Yong-Seok Song, Soesiawati R. Darjatmoko, Arthur S. Polans, Nader Sheibani
Summary: This paper investigates the potential of using S1PR agonists to inhibit choroidal neovascularization. Through in vitro and in vivo experiments, it is confirmed that S1PR1 is the most abundantly expressed receptor in choroidal endothelial cells and S1PR agonists can significantly suppress choroidal neovascularization. These findings suggest a potential new application for S1PR agonists in the treatment of nAMD and other inflammation-related diseases.
Article
Dentistry, Oral Surgery & Medicine
Mohammad Ali Saghiri, Nader Sheibani, Toshihisa Kawai, Devyani Nath, Sahar Dadvand, Saeid B. Amini, Julia Vakhnovetsky, Steven M. Morgano
Summary: This study evaluated the effect of type 1 diabetes mellitus (T1DM) on the micro-hardness of tooth enamel and dentine in mice. The results showed that T1DM negatively affected the micro-hardness of enamel and dentine, with enamel being more negatively and rapidly affected.
ARCHIVES OF ORAL BIOLOGY
(2022)
Review
Biochemistry & Molecular Biology
Leila Khalili, Gholamreza Dehghan, Nader Sheibani, Alireza Khataee
Summary: The production of multifunctional lipid-polymer hybrid nanoparticles offers great opportunities for selective and efficient therapeutics delivery by combining the biomimetic behavior of liposomes and the advantages of polymers. Bio-modifications show immense potential in addressing the challenges of scaling up production and enhancing biomedical applications.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2022)
Review
Cell Biology
Yong-Seok Song, Andrew J. Annalora, Craig B. Marcus, Colin R. Jefcoate, Christine M. Sorenson, Nader Sheibani
Summary: Cytochrome P450 1B1 plays an important role in maintaining retinal iron homeostasis. By modulating iron levels, it influences oxidative stress and the development of ocular diseases.
Article
Biochemistry & Molecular Biology
Yong-Seok Song, Ismail S. Zaitoun, Shoujian Wang, Soesiawati R. Darjatmoko, Christine M. Sorenson, Nader Sheibani
Summary: CYP1B1 expression in the retina is crucial for maintaining cellular redox homeostasis. Its metabolism of 17β-estradiol affects iron metabolism and lipid peroxidation, leading to iron accumulation and oxidative stress.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Cell Biology
Yong-Seok Song, Nasim Jamali, Christine M. M. Sorenson, Nader Sheibani
Summary: The integrity of retinal endothelial cell (EC) is crucial for maintaining retinal blood barrier and proper vision. Vitamin D, mainly mediated through the vitamin D receptor (VDR), plays a protective role in EC function. However, little is known about the impact of vitamin D-VDR on retinal EC function and ocular angiogenesis and inflammation. In this study, using retinal EC from VDR-deficient mice, the authors found that VDR expression is essential for endothelial cell-cell and cell-matrix interactions, as well as proliferation, migration, and inflammatory response of retinal EC. Furthermore, VDR deficiency leads to down-regulation of endothelial nitric oxide synthetase, enhanced hepcidin expression, and increased intracellular iron levels, contributing to the altered angiogenic and inflammatory state of retinal EC.
Article
Environmental Sciences
Nesa Hamidian, Gholamreza Dehghan, Samaneh Rashtbari, Alireza Khataee, Mehdi Khoobi, Nader Sheibani
Summary: A magnetite/Gd3+/beta-cyclodextrin nanoplatform was prepared and used for the degradation of tetracycline. The nanoplatform showed higher peroxidase-mimic activity than natural enzymes. It was able to degrade tetracycline efficiently and could be reused.
Article
Endocrinology & Metabolism
Subramanian Dharmarajan, Casandra Carrillo, Zhonghua Qi, Jonathan M. Wilson, Anthony J. Baucum II, Christine M. Sorenson, Nader Sheibani, Teri L. Belecky-Adams
Summary: This study aimed to investigate the impact of chronic inflammation on the loss of pericytes in early diabetic retinopathy. The results showed that both type 1 and type 2 diabetes led to similar progression of retinal pericyte loss and gliosis. However, the expression of inflammatory factors differed between the two diabetes models, with peak expression occurring at different ages. Additionally, retinal vascular changes were more severe in the type 2 diabetes model. Chronic exposure of retinal pericytes to IFN gamma resulted in decreased PDGFR beta signaling and increased levels of active PKC delta and CC3, indicating increased pericyte apoptosis.
Article
Biochemistry & Molecular Biology
Michele C. Larsen, Catherine M. Rondelli, Ahmed Almeldin, Yong-Seok Song, Alhaji N'Jai, David L. Alexander, E. Camilla Forsberg, Nader Sheibani, Colin R. Jefcoate
Summary: This study reveals the regulation of bone marrow cells by polycyclic aromatic hydrocarbon (PAH) pollutants and microbiome products through the aryl hydrocarbon receptor (AhR). The absence of Cyp1b1 and activation of AhR by PAH result in similar gene stimulations in these cells. Specific sources of Cyp1b1 are found to be linked to AhR and an OLFR network to modulate BM inflammation through diverse microbiome products.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
