Article
Pharmacology & Pharmacy
Saadia Khilji, Yuan Li, Jihong Chen, Qiao Li
Summary: Bexarotene, an agonist of retinoid X receptor, plays a crucial role in promoting myoblast differentiation. Integration of RNA-seq and ChIP-seq data helps decipher the molecular regulation of rexinoid signaling in myogenic differentiation. These datasets provide strategies and a framework for future research.
FRONTIERS IN PHARMACOLOGY
(2021)
Article
Multidisciplinary Sciences
Qiao Li, Yan Z. Mach, Munerah Hamed, Saadia Khilji, Jihong Chen
Summary: Histone acetylation and deacetylation play important roles in gene expression during cellular differentiation. The acetyltransferase p300 is essential for muscle gene expression, while histone deacetylases (HDACs) control gene repression in stem cell fate transition. The expression of Hdac11 is enhanced by nuclear receptor signaling, and it may be essential for differential gene expression during myoblast differentiation.
Review
Biochemistry & Molecular Biology
Hyun-Min Kim, Xiaoyu Zheng, Ethan Lee
Summary: Chromatin structure is regulated by histone modifiers, which add or remove chemical changes to histone proteins, and plays a crucial role in gene expression. The p53 transcription factor controls gene activity and has been extensively studied in cancer research. However, the association between p53 and histone modifiers has not been thoroughly investigated. This review explores the interplay between histone modifiers and p53 in gene regulation, highlighting their potential implications for cancer therapy.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Review
Biochemistry & Molecular Biology
Joanna A. Motyl, Joanna B. Strosznajder, Agnieszka Wencel, Robert P. Strosznajder
Summary: Molecular studies suggest that Parkinson's disease is a protein conformational disease involving the spread of alpha-synuclein pathology along the neuraxis. Pathogenic forms of alpha-synuclein induce oxidative stress, neuroinflammation, and protein alterations in neighboring cells, leading to increased toxicity and neurodegeneration. Maintaining homeostasis between bioactive sphingolipids is crucial in cell defense against oxidative stress, with a focus on sphingosine kinases and sphingosine-1-phosphate signaling as potential pharmacological targets for neurological diseases like PD.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Review
Cell Biology
Trine V. Dam, Nicolaj I. Toft, Lars Grontved
Summary: The prevalence of non-alcoholic fatty liver disease (NAFLD) is increasing rapidly. There are difficulties in diagnosing and treating NAFLD. Further insight into disease mechanisms and gene regulatory mechanisms associated with tissue remodeling is needed. Mapping the cis-regulatory genome and single-cell analysis are emerging technologies that provide more possibilities for research.
Article
Biochemistry & Molecular Biology
Alireza Fotuhi Siahpirani, Sara Knaack, Deborah Chasman, Morten Seirup, Rupa Sridharan, Ron Stewart, James Thomson, Sushmita Roy
Summary: Dynamic regulatory module networks (DRMNs) are a novel approach to infer cell type-specific cis-regulatory networks and their dynamics by integrating multi-omic data. DRMNs can predict cis-regulators of context-specific expression and capture network dynamics across linearly and hierarchically related contexts.
Article
Biochemistry & Molecular Biology
Baoxing Song, Edward S. Buckler, Hai Wang, Yaoyao Wu, Evan Rees, Elizabeth A. Kellogg, Daniel J. Gates, Merritt Khaipho-Burch, Peter J. Bradbury, Jeffrey Ross-Ibarra, Matthew B. Hufford, M. Cinta Romay
Summary: Thousands of species are set to be sequenced in the coming years, and understanding the functionality of their genomes requires molecular and evolutionary approaches. A study focusing on the Andropogoneae tribe, which includes multiple crop species, revealed highly conserved noncoding sequences rich in functional elements. These findings shed light on the evolution and functional significance of CNSs in maize.
Review
Cell Biology
Yejin Cao, Yueru Hou, Longhao Zhao, Yijin Huang, Guangwei Liu
Summary: Tfr cells are a unique subset of Treg cells located in germinal centers, expressing transcription profiles of both Tfh and Treg cells and negatively regulating GC reactions. They have specific characteristics in different local immune microenvironments.
JOURNAL OF CELLULAR PHYSIOLOGY
(2023)
Article
Nutrition & Dietetics
Xin Guan, Qiyang Yan, Dandan Wang, Guocheng Du, Jingwen Zhou
Summary: This study investigates the effects of IGF-1 signaling on mitochondrial remodeling during myogenic differentiation, and identifies key mediators of IGF-1-induced mitochondrial biogenesis and mitophagy. IGF-1 signaling stimulates mitochondrial biogenesis by increasing mitochondrial DNA copy number and the expression of related genes. Additionally, IGF-1 treatment significantly enhances mitophagy levels in differentiating myoblasts, contributing to mitochondrial turnover.
Article
Multidisciplinary Sciences
Wentong Jiang, Sanduo Zheng
Summary: This study reports the cryoelectron microscopy structures of the GALR1-G(o) and GALR2-G(q) complexes bound to the endogenous ligand galanin or spexin, revealing the structural determinants of GALRs and highlighting the potential role of zinc ion as a modulator of GALR1.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Plant Sciences
Caroline Juery, Lorenzo Concia, Romain De Oliveira, Nathan Papon, Ricardo Ramirez-Gonzalez, Moussa Benhamed, Cristobal Uauy, Frederic Choulet, Etienne Paux
Summary: Bread wheat is an allohexaploid species resulting from two successive hybridization events, with its genes divided between triads and various homoeologous groups. Deletion (dyads) or duplication (tetrads) in one subgenome were found to be located in distal regions with lower expression levels, enriched in adaptive functions and associated with the repressive H3K27me3 modification. Triads are considered housekeeping genes in the core genome, while dyads and tetrads belong to the dispensable genome, suggesting absence of subgenome dominance and biased fractionation in hexaploid wheat. The differences observed between subgenomes are likely due to post-polyploid diploidization waves impacting A and B more significantly than D.
Article
Biochemistry & Molecular Biology
Pierfrancesco Pagella, Simon Soderholm Derholm, Anna Nordin, Gianluca Zambanini, Valeria Ghezzi, Amaia Jauregi-Miguel, Claudio Cantu
Summary: Wnt signaling regulates gene expression through its effector 3-catenin, but it is not known if 3-catenin simultaneously binds to its target genomic regions and how this affects chromatin dynamics to modulate cell behavior. By combining various techniques, the researchers demonstrate that Wnt/3-catenin physical targets are tissue-specific, 3-catenin moves on different loci over time, and its association with DNA is accompanied by changes in chromatin accessibility landscapes that determine cell behavior. This study highlights the importance of understanding the time-dependent and context-specific regulation of cell communication mechanisms for future research.
Article
Medicine, General & Internal
Chun Min Tan, Nadwa Aqeela Mohd Najib, Nur Farahin Suhaimi, Nur Alia Halid, Vi Vien Cho, Saiful Idham Abdullah, Muhammad Zulhilmi Ismail, Shy Cian Khor, Faizul Jaafar, Suzana Makpol
Summary: The study demonstrated that TRF significantly improved the morphology of senescent myoblasts and promoted myoblast differentiation. Treatment with TRF increased Ki67 and myogenin expression in senescent myoblasts, suggesting potential benefits for ameliorating regenerative defects during aging.
ARCHIVES OF MEDICAL SCIENCE
(2021)
Article
Microbiology
Olga Martzoukou, Panayiotis D. Glekas, Margaritis Avgeris, Diomi Mamma, Andreas Scorilas, Dimitris Kekos, Sotiris Amillis, Dimitris G. Hatzinikolaou
Summary: In this study, researchers performed precise genome editing on the model biocatalyst Rhodococcus qingshengii IGTS8 for the first time, shedding light on the regulation of dsz gene expression and biocatalyst activity dependent on the presence of two reverse transsulfuration enzymes, C beta S and MetB. Additionally, they observed an enhancement of biodesulfurization capability in the presence of otherwise repressive sulfur sources like sulfate and L-methionine. The interconnection of cellular sulfur assimilation strategies was revealed and validated.
Review
Pathology
Sonia Arely Garcia, Vincent Y. Ng, Masahiro Iwamoto, Motomi Enomoto-Iwamoto
Summary: Osteochondromas are the most common benign bone tumor in children, causing issues such as skeletal deformity and pain. Surgery is currently the only treatment option. Mouse models have been developed to study the pathology and origin of osteochondromas, with research focusing on potential therapeutic drugs.
AMERICAN JOURNAL OF PATHOLOGY
(2021)
Letter
Gastroenterology & Hepatology
Katherine Dixon, Janine Senz, Pardeep Kaurah, David G. Huntsman, Kasmintan A. Schrader
Article
Oncology
Katherine Dixon, Tom Brew, David Farnell, Tanis D. Godwin, Simon Cheung, Christine Chow, Monica Ta, Germain Ho, Minh Bui, J. Maxwell Douglas, Kieran R. Campbell, Amal El-Naggar, Pardeep Kaurah, Steve E. Kalloger, Howard J. Lim, David F. Schaeffer, Dawn Cochrane, Parry Guilford, David G. Huntsman
Summary: Hereditary diffuse gastric cancer (HDGC) is caused by germline variants in the CDH1 gene, but the mechanisms underlying its initiation are unclear. The study found that deregulation of developmental transcriptional programs may precede malignancy in HDGC.
JOURNAL OF PATHOLOGY
(2021)
Article
Pharmacology & Pharmacy
Saadia Khilji, Yuan Li, Jihong Chen, Qiao Li
Summary: Bexarotene, an agonist of retinoid X receptor, plays a crucial role in promoting myoblast differentiation. Integration of RNA-seq and ChIP-seq data helps decipher the molecular regulation of rexinoid signaling in myogenic differentiation. These datasets provide strategies and a framework for future research.
FRONTIERS IN PHARMACOLOGY
(2021)
Article
Gastroenterology & Hepatology
Katherine Dixon, Mary-Jill Asrat, Angela C. Bedard, Kristin Binnington, Katie Compton, Carol Cremin, Nili Heidary, Zoe Lohn, Niki Lovick, Mary McCullum, Allison Mindlin, Melanie O'Loughlin, Tammy Petersen, Cheryl Portigal-Todd, Jenna Scott, Genevieve St-Martin, Jennifer Thompson, Ruth Turnbull, Sze Wing Mung, Quan Hong, Marjorie Bezeau, Ian Bosdet, Tracy Tucker, Sean Young, Stephen Yip, Gudrun Aubertin, Katherine A. Blood, Jennifer Nuk, Sophie Sun, Kasmintan A. Schrader
Summary: This study investigated the clinical utility of tumor sequencing for suspected Lynch syndrome families, showing that tumor sequencing can provide a molecular diagnosis and better clinical management for some patients with Lynch syndrome. The integration of tumor sequencing into current Lynch syndrome screening programs is supported to improve clinical management for individuals with uninformative germline testing.
CLINICAL AND TRANSLATIONAL GASTROENTEROLOGY
(2021)
Article
Genetics & Heredity
Pierre K. Boerkoel, Katherine Dixon, Carrie Fitzsimons, Yaoqing Shen, Stephanie Huynh, Kamilla Schlade-Bartusiak, Luka Culibrk, Simon Chan, Cornelius F. Boerkoel, Steven J. M. Jones, Hui-Lin Chin
Summary: This study reports a newborn with syndromic degenerative anophthalmia and a complex de novo rearrangement of chromosome 13q. Long-read genome sequencing improved the resolution and clinical interpretation of the rearrangement, providing new insights into the molecular etiology of MAC.
AMERICAN JOURNAL OF MEDICAL GENETICS PART A
(2022)
Article
Genetics & Heredity
Hui-Lin Chin, Stephanie Huynh, Jahanshah Ashkani, Michael Castaldo, Katherine Dixon, Kathryn Selby, Yaoqing Shen, Marie Wright, Cornelius F. Boerkoel, Glenda Hendson, Steven J. M. Jones
Summary: Monoallelic pathogenic variants in BICD2 cause autosomal dominant Spinal Muscular Atrophy Lower Extremity Predominant 2A and 2B. Dysfunction of BICD2 leads to motor neuron loss. A novel de novo BICD2 variant was identified in a patient with diaphragmatic paralysis without typical muscle weakness and contractures, expanding the phenotypic spectrum of BICD2-related disease.
AMERICAN JOURNAL OF MEDICAL GENETICS PART A
(2022)
Article
Biochemistry & Molecular Biology
Stephanie Hajjar, Nayanan Nathan, Julie Joseph, Walid Mottawea, Ardeshir Ariana, Sergey Pyatibrat, Mary-Ellen Harper, Tommy Alain, Alexandre Blais, Ryan C. Russell, Subash Sad
Summary: Mutations in susceptibility alleles associated with gut-inflammatory diseases like Crohn's disease do not always impact disease progression due to compensatory genes. Reduction in Foxo3a expression in IL-10-deficient mice leads to a severe Crohn's-like disease, which can be rescued by deleting specific cells and inhibiting mTORC1. Foxo3a suppresses glutaminolysis in activated T cells, acting as a critical checkpoint to prevent fulminant gut inflammatory disease development.
CELL DEATH AND DIFFERENTIATION
(2022)
Article
Cell Biology
Munerah Hamed, Jihong Chen, Qiao Li
Summary: Dystroglycan, a key component for muscle membrane integrity, is regulated by retinoid X receptor signaling and plays a crucial role in myoblast differentiation. It is a target gene of the muscle master regulator MyoD and its expression is influenced by residue-specific histone acetylation. Our study provides new insights into the regulation and function of dystroglycan in myoblasts and suggests potential therapeutic approaches for muscle pathology.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Article
Integrative & Complementary Medicine
Samiah Hamad Al-Mijalli, Eman R. ELsharkawy, Emad M. Abdallah, Munerah Hamed, Nasreddine El Omari, Shafi Mahmud, Mohammed Merae Alshahrani, Hanae Naceiri Mrabti, Abdelhakim Bouyahya
Summary: This study identified the chemical composition of Mentha piperita and Lavandula multifida essential oils and evaluated their antibacterial, antioxidant, and antidiabetic activities. The results showed that both essential oils exhibited promising biological properties.
EVIDENCE-BASED COMPLEMENTARY AND ALTERNATIVE MEDICINE
(2022)
Article
Biochemistry & Molecular Biology
Hamza M. Assaggaf, Hanae Naceiri Mrabti, Bodour S. Rajab, Ammar A. Attar, Reema A. Alyamani, Munerah Hamed, Nasreddine El Omari, Naoual El Menyiy, Zakaria Hazzoumi, Taoufiq Benali, Samiah Hamad Al-Mijalli, Gokhan Zengin, Yusra AlDhaheri, Ali H. Eid, Abdelhakim Bouyahya
Summary: The study aimed to determine the chemical compounds of Salvia officinalis essential oils and investigate their antimicrobial, antioxidant, antidiabetic, and anti-inflammatory properties. The findings showed that the essential oils of S. officinalis synthesized during different developmental stages exhibited medicinal effects, including antioxidant, antidiabetic, and antibacterial activities.
Article
Biochemistry & Molecular Biology
Hamza M. Assaggaf, Hanae Naceiri Mrabti, Bodour S. Rajab, Ammar A. Attar, Munerah Hamed, Ryan A. Sheikh, Nasreddine El Omari, Naoual El Menyiy, Omar Belmehdi, Shafi Mahmud, Mohammed Merae Alshahrani, Moon Nyeo Park, Bonglee Kim, Gokhan Zengin, Abdelhakim Bouyahya
Summary: Through chemical analysis and a series of experiments, this study evaluated the effects of essential oil and honey from Eucalyptus globulus on antioxidant, anti-inflammatory, dermatoprotective, and antimicrobial activities. The results showed that the combination of essential oil with honey exhibited the best antioxidant effects and the essential oil displayed the highest activity against tyrosinase and 5-lipoxygenase. Additionally, the essential oil also showed strong antibacterial activity against all strains tested.
Article
Plant Sciences
Samiah Hamad Al-Mijalli, Hanae Naceiri Mrabti, Hamza Assaggaf, Ammar A. Attar, Munerah Hamed, Aicha El Baaboua, Nasreddine El Omari, Naoual El Menyiy, Zakaria Hazzoumi, Ryan A. Sheikh, Gokhan Zengin, Stefania Sut, Stefano Dall'Acqua, Abdelhakim Bouyahya
Summary: The study revealed that essential oil extracted from full flowering stage of Pelargonium graveolens exhibits the best antioxidant, antidiabetic, dermaprotective, anti-inflammatory, and antibacterial effects, suggesting its optimal harvest time for food and pharmaceutical applications.
Article
Biochemistry & Molecular Biology
Ahmed Qasem, Hamza Assaggaf, Hanae Naceiri Mrabti, Faisal Minshawi, Bodour S. S. Rajab, Ammar A. A. Attar, Reema A. A. Alyamani, Munerah Hamed, Nidal Naceiri Mrabti, Aicha El Baaboua, Nasreddine El Omari, Mohammed Merae Alshahrani, Ahmed Abdullah Al Awadh, Ryan Adnan Sheikh, Long Chiau Ming, Khang Wen Goh, Abdelhakim Bouyahya
Summary: This study aimed to determine the chemical composition and evaluate the properties of Ocimum basilicum essential oils (EOs), including antibacterial, antidiabetic, dermatoprotective, and anti-inflammatory activities. The results showed that the main compounds of O. basilicum EO were methyl chavicol and trans-anethol, which exhibited significant antibacterial and anti-inflammatory effects, as well as inhibition of carbohydrate digestion enzymes.
Article
Chemistry, Medicinal
Danish Iqbal, Md Tabish Rehman, Mohamed F. Alajmi, Mohammed Alsaweed, Qazi Mohammad Sajid Jamal, Sharifa M. Alasiry, Awatif B. Albaker, Munerah Hamed, Mehnaz Kamal, Hind Muteb Albadrani
Summary: In search of a new natural cure for Alzheimer's disease (AD), researchers targeted multiple key regulatory proteins and conducted virtual screening and molecular dynamics simulation (MDS) to identify a promising compound. F1094-0201 emerged as a potent multitarget inhibitor, exhibiting strong binding interactions with GSK3 beta, NMDA receptor, and BACE-1. Analysis indicated its suitability for CNS drug-likeness and stable association with the target proteins. The compound's free energies supported its potential as a therapeutic option for managing AD-related pathways.