Article
Cell Biology
Yingjie Qing, Xiangyuan Wang, Hongzheng Wang, Po Hu, Hui Li, Xiaoxuan Yu, Mengyuan Zhu, Zhanyu Wang, Yu Zhu, Jingyan Xu, Qinglong Guo, Hui Hui
Summary: The study revealed that wogonin exerts anti-leukemia effects on CML cells by regulating the P-TEFb complex, promoting erythroid differentiation by increasing the binding between GATA-1 and FOG-1 while decreasing the binding between GATA-1 and RUNX1. Additionally, wogonin induces apoptosis and reduces MCL-1 levels in KU-812 cells.
CELL COMMUNICATION AND SIGNALING
(2021)
Article
Cell Biology
Cecilia Studniarek, Michael Tellier, Pascal G. P. Martin, Shona Murphy, Tamas Kiss, Sylvain Egloff
Summary: The lack of 7SK snRNP has minor impact on global RNAPII transcription under normal conditions, but impairs transcriptional response and reduces viability upon UV-light-induced DNA damage. 7SK is crucial for proper induction of UV-responsive genes and orchestrating the transcriptional response to stress.
Article
Biochemistry & Molecular Biology
Dheerendra Pratap Mall, Subham Basu, Koushik Ghosh, Nidhi Kumari, Abhishake Lahiri, Sandip Paul, Debabrata Biswas
Summary: Research indicates that FKBP5 plays an antiproliferative role by negatively regulating the expression of proliferation-related genes. It competes with Cyclin T1 to form functional positive transcription elongation factor b (P-TEFb) complex, leading to inhibition of phosphorylation of diverse substrates. Knockdown of FKBP5 enhances the formation of P-TEFb complex, resulting in increased phosphorylation of RNA polymerase II C-terminal domain and proliferation.
MOLECULAR AND CELLULAR BIOLOGY
(2022)
Article
Cell Biology
Dawei Chen, Zhenguo Zhao, Lu Chen, Qinghua Li, Jixue Zou, Shuanghai Liu
Summary: The protein phosphatase PPM1G plays a crucial role in regulating the phosphorylation of SRSF3 in hepatocellular carcinoma (HCC), affecting HCC proliferation, invasion, and metastasis. Higher levels of PPM1G in HCC tissues are correlated with poor prognosis and knocking down PPM1G can inhibit HCC cell growth and invasion. Additionally, PPM1G interacts with proteins related to alternative splicing and its overexpression alters alternative splicing patterns of genes in HCC cells.
CELL DEATH & DISEASE
(2021)
Article
Biochemistry & Molecular Biology
Jennifer Porat, Viktor A. Slat, Stephen D. Rader, Mark A. Bayfield
Summary: Splicing requires tight coordination between dynamic spliceosomal RNAs and proteins. In this study, the authors found that Bmc1 and Pof8 play important roles in the formation of a distinct U6 snRNP that promotes U6 2'-O-methylation, and identified a non-canonical snoRNA guiding this methylation. They also discovered that the 5' γ-monomethyl phosphate capping activity of Bmc1 is not required for its role in promoting snoRNA-guided 2'-O-methylation. These findings provide insights into the novel functions of Bmc1/MePCE family members and the general role of Bmc1 and Pof8 in guiding noncoding RNP assembly.
NUCLEIC ACIDS RESEARCH
(2023)
Article
Biochemistry & Molecular Biology
Toray S. Akcan, Sergey Vilov, Matthias Heinig
Summary: DNA and RNA-binding trans-acting factors play a crucial role in regulating promoter-proximal RNA polymerase II (Pol II) pausing, which is a rate-limiting step in gene expression. In this study, we developed a machine learning model that accurately predicts the extent of Pol II pausing based on genomic and transcriptomic data, and identified previously unknown regulators of pausing.
NUCLEIC ACIDS RESEARCH
(2023)
Article
Biochemistry & Molecular Biology
Ying Chen, Seychelle M. Vos, Christian Dienemann, Momchil Ninov, Henning Urlaub, Patrick Cramer
Summary: This study presents the cryo-EM structure of ELL2-EAF1 bound to a RNA Pol II elongation complex, showing how SEC delivers P-TEFb to RNA Pol II and stimulates RNA elongation. Functional analysis indicates that the stimulation of RNA elongation requires the dimerization module and the ELL2 linker.
Article
Multidisciplinary Sciences
Marcelo Perez-Pepe, Anthony W. Desotell, Hengyi Li, Wenxue Li, Bing Han, Qishan Lin, Daryl E. Klein, Yansheng Liu, Hani Goodarzi, Claudio R. Alarcon
Summary: A fundamental feature of cell signaling is the conversion of extracellular signals into adaptive transcriptional responses. The role of RNA modifications in this process is poorly understood. We found that epidermal growth factor signaling induces phosphorylation of the enzyme methyltransferase 3 (METTL3), leading to METTL3-mediated methylation of 7SK. 7SK methylation enhances its binding to heterogeneous nuclear ribonucleoproteins, causing the release of the HEXIM1/P-TEFb complex and inducing transcriptional elongation. Our findings establish the mechanism underlying 7SK activation and uncover a previously unknown function for the m6A modification in converting growth factor signaling events into a regulatory transcriptional response via an RNA methylation-dependent switch.
Article
Biochemistry & Molecular Biology
Yuzhi Wang, Conner M. Traugot, Jodi L. Bubenik, Tianqi Li, Peike Sheng, Nicholas M. Hiers, Paul Fernandez, Lu Li, Jiang Bian, Maurice S. Swanson, Mingyi Xie
Summary: This study reveals that N6-methyladenosine modifications on a non-coding RNA, 7SK, play a crucial role in regulating RNA polymerase II transcription in non-small cell lung cancer. The removal of this modification leads to structural rearrangements in 7SK, resulting in the sequestration of positive transcription elongation factor b (P-TEFb) complex and a reduction in RNA polymerase II activity. This finding sheds light on the mechanism of how m6A modifications regulate tumorigenesis in NSCLC.
Article
Medicine, General & Internal
Zhenghui He, Lijian Lang, Jiyuan Hui, Yuxiao Ma, Chun Yang, Weiji Weng, Jialin Huang, Xiongfei Zhao, Xiaoqi Zhang, Qian Liang, Jiyao Jiang, Junfeng Feng
Summary: This study found that around 7 days after TBI in mice, the subacute phase could encourage more neuronal differentiation after transplantation. The autophagy flux played a critical role in regulating neuronal differentiation and could be a potential target to improve the efficacy of transplantation in the early phase.
JOURNAL OF CLINICAL MEDICINE
(2022)
Article
Biochemistry & Molecular Biology
Samuel W. Olson, Anne-Marie W. Turner, J. Winston Arney, Irfana Saleem, Chase A. Weidmann, David M. Margolis, Kevin M. Weeks, Anthony M. Mustoe
Summary: This study used a single-molecule chemical probing strategy, DANCE-MaP, to define the structural dynamics of 7SK RNA and revealed its role in regulating transcription and responding to cellular signals.
Article
Oncology
Meiling Xia, Rui Yan, Wenjuan Wang, Meng Zhang, Zhigang Miao, Bo Wan, Xingshun Xu
Summary: TET2 protein is regulated by the GID complex during neural stem cell differentiation, and the GID complex negatively regulates TET2 protein stability, thereby modulating brain development.
FRONTIERS OF MEDICINE
(2023)
Article
Cell Biology
Ruidong Li, Wenwen Zhang, Zhengjian Yan, Wei Liu, Jiaming Fan, Yixiao Feng, Zongyue Zeng, Daigui Cao, Rex C. Haydon, Hue H. Luu, Zhong-Liang Deng, Tong-Chuan He, Yulong Zou
Summary: mHotair plays a crucial role in BMP9-induced MSC osteogenesis by targeting cell cycle and proliferation, as demonstrated by increased expression in bones, and its regulation of osteogenic differentiation, chondrogenic markers, and adipogenic markers.
Article
Neurosciences
Adelya Albertovna Galiakberova, Olga Igorevna Brovkina, Nikolay Vitalyevich Kondratyev, Alexander Sergeevich Artyuhov, Ekaterina Dmitrievna Momotyuk, Olga Nikolaevna Kulmukhametova, Alexey Aleksandrovich Lagunin, Boris Vladimirovich Shilov, Anton Dmitrievich Zadorozhny, Igor Sergeevitch Zakharov, Larisa Sergeevna Okorokova, Vera Evgenievna Golimbet, Erdem Bairovich Dashinimaev
Summary: Culturing human neural stem cells (NSCs) derived from induced pluripotent stem cells (iPSC) is a promising area of research, but the stability of these cells during long-term culturing remains a challenge. This study investigated the spontaneous differentiation profile of iPSC-derived NSCs during long-term cultivation. Results showed that different NSC lines generate significantly different spectrums of differentiated neural cells, which can also change significantly during long-term cultivation. These findings have important implications for the development of optimal NSCs culturing protocols and highlight the need for further investigation into the factors influencing the stability of these cells in vitro.
FRONTIERS IN MOLECULAR NEUROSCIENCE
(2023)
Article
Environmental Sciences
Guiya Xiong, Bing Zhang, Bo Song, Huan Luo, Lina Zhao, Zhibin Wang, Zhijun Zhou, Xiuli Chang
Summary: The study investigated the neurotoxicity of Paraquat by analyzing its impact on murine neural stem cell differentiation using single-cell RNA sequencing. The results showed that Paraquat exposure changed the proportions of different cell subtypes, leading to reduced neurons and increased astrocytes, with mechanisms involving increased intracellular and mitochondrial reactive oxygen species. Additionally, Paraquat dysregulated cell-to-cell communications and pretreatment with the antioxidant MitoTEMPO ameliorated the neuronal reduction caused by Paraquat.
SCIENCE OF THE TOTAL ENVIRONMENT
(2021)
Article
Oncology
Zahra Nozhat, Maryam Zarkesh, Enke Baldini, Samira Mohammadi-Yeganeh, Feridoun Azizi, Mehdi Hedayati
Summary: The study demonstrated that Met significantly reduced the viability of MTC cells and decreased the expression levels of PI3K, AKT, and FOXO1 genes, while increasing the expression of the RET proto-oncogene.
ANTI-CANCER AGENTS IN MEDICINAL CHEMISTRY
(2022)
Article
Oncology
Vahid F. Omrani, Ameneh Koochaki, Sahar Behzad, Vahid Kia, Peyman Ghasemi, Javad Razaviyan, Hamid Reza Moosavian, Maysam Rezapour, Mohammad Vasei, Mohsen Asouri, Samira Mohammadi-Yeganeh
Summary: This study evaluated the effect of Sambucus Ebulus extract on triple-negative breast cancer and found that it significantly decreased cell proliferation and viability without toxicity to normal breast cells. Further analysis showed that the extract could suppress tumor cell growth by regulating the expression of cell cycle and apoptosis-related genes. Thus, Sambucus Ebulus extract may be a safe herbal compound for treating breast cancer.
ANTI-CANCER AGENTS IN MEDICINAL CHEMISTRY
(2022)
Article
Cell Biology
Hasan Safwan-Zaiter, Nicole Wagner, Jean-Francois Michiels, Kay-Dietrich Wagner
Summary: This study investigated the expression of p16 in development and aging, showing dynamic changes in its expression levels across different organs and ages. The study also found a predominant expression of p16 in liver endothelial cells of old mice, suggesting a specific role in the liver endothelium of aged subjects.
Article
Immunology
Maryam Moradi-Chaleshtori, Ameneh Koochaki, Samaneh Shojaei, Mahdi Paryan, Mehrnoush Safarzadeh, Seyed Mahmoud Hashemi, Samira Mohammadi-Yeganeh
Summary: M2 macrophages play a crucial role in tumor progression, and reprogramming them can be a potential strategy for cancer immunotherapy. The study suggests that introducing PEDF into exosomes may serve as a potential approach for reprogramming of M2 macrophages in cancer.
IMMUNOLOGY LETTERS
(2022)
Editorial Material
Biochemistry & Molecular Biology
Nicole Wagner, Kay-Dietrich Wagner
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Medicine, General & Internal
Vahid Kia, Ali Tafti, Mahdi Paryan, Samira Mohammadi-Yeganeh
Summary: The developed real-time NASBA assay in this study is a sensitive and specific method for the detection of SARS-CoV-2, comparable to real-time PCR. The limit of detection of the assay is 200 copies/mL, and the clinical sensitivity is 97.64%. Compared to other isothermal methods, real-time NASBA has a straightforward primer design and can be used for inexpensive detection.
IRISH JOURNAL OF MEDICAL SCIENCE
(2023)
Article
Engineering, Biomedical
Zahra Khosrowpour, Seyed Mahmoud Hashemi, Samira Mohammadi-Yeganeh, Mehdi Moghtadaei, Peiman Brouki Milan, Lorenzo Moroni, Subhas C. Kundu, Mazaher Gholipourmalekabadi
Summary: The decellularized placental sponge shows potential as a bone substitute and provides a platform for communication between macrophages and mesenchymal stem cells, guiding the differentiation of stem cells towards bone cells.
Review
Biochemistry & Molecular Biology
Nicole Wagner, Kay-Dietrich Wagner
Summary: Peroxisome proliferator activated receptors (PPARs) are ligand-activated transcription factors that play important roles in glucose and lipid metabolism. They are also involved in reducing inflammation and atherosclerosis. Different types of PPARs have specific synthetic agonists, which are used to treat dyslipidemia and Type 2 diabetes mellitus. The safety of PPAR activators in cardiovascular diseases is still controversial.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemistry & Molecular Biology
Majdedin Ghalavand, Maryam Moradi-Chaleshtori, Ruhollah Dorostkar, Samira Mohammadi-Yeganeh, Seyed Mahmoud Hashemi
Summary: This study investigated the role of the tumor microenvironment and purified exosomes in M2 to M1 macrophage polarization, highlighting its potential as cancer immunotherapy. The results demonstrated that treatment with rapamycin-exosomes induced polarization of M2 macrophages to M1, leading to improved macrophage functionality.
BIOTECHNOLOGY AND APPLIED BIOCHEMISTRY
(2023)
Editorial Material
Biochemistry & Molecular Biology
Nicole Wagner, Kay-Dietrich Wagner
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Endocrinology & Metabolism
Vahedeh Hosseini, Mahdi Paryan, Ameneh Koochaki, Henry Manuel Cesaire, Samira Mohammadi-Yeganeh
Summary: In this study, miR-4699 was transfected into hAd-MSCs, and it was found that miR-4699 can promote osteoblast differentiation, increase alkaline phosphatase activity and calcium deposition, and enhance the expression of osteoblast marker genes. Furthermore, miR-4699 synergizes with BMP2 to induce osteoblast differentiation of mesenchymal stem cells.
JOURNAL OF BONE AND MINERAL METABOLISM
(2023)
Editorial Material
Cell Biology
Nicole Wagner, Kay-Dietrich Wagner
Article
Cardiac & Cardiovascular Systems
Sandra Diaz del Moral, Maha Benaouicha, Cristina Villa del Campo, Miguel Torres, Nicole Wagner, Kay-Dietrich Wagner, Ramon Munoz-Chapuli, Rita Carmona
Summary: The Wilms tumor suppressor gene (Wt1) encodes a C2H2-type zinc-finger transcription factor involved in various cellular processes. It has a crucial role in the development of multiple organs. Silencing or deletion of Wt1 in cardiomyocytes leads to abnormal cardiac development and increased susceptibility to damage. These findings suggest that WT1 plays a novel role in cardiac physiology and protection against damage.
JOURNAL OF CARDIOVASCULAR DEVELOPMENT AND DISEASE
(2023)
Article
Biochemistry & Molecular Biology
Ali Tafti, Samaneh Shojaei, Hakimeh Zali, Saeed Karima, Samira Mohammadi-Yeganeh, Mahdieh Mondanizadeh
Summary: In this study, the researchers investigated the effect of Rapamycin on triple-negative breast cancer (TNBC) cells. They identified important genes and miRNAs targeted by Rapamycin and demonstrated that it suppresses cell migration, induces apoptosis, and has potential therapeutic benefits in TNBC treatment.
MOLECULAR CARCINOGENESIS
(2023)
Article
Biochemistry & Molecular Biology
Ali Ahmadizad Firouzjaei, Seyed Hamid Aghaee-Bakhtiari, Ali Tafti, Kazem Sharifi, Mohammad Hassan Jafari Najaf Abadi, Samaneh Rezaei, Samira Mohammadi-Yeganeh
Summary: This study investigates the effects of curcumin, a natural compound found in turmeric, on genes related to ferroptosis in colorectal cancer (CRC). The findings suggest that curcumin could regulate ferroptosis-related genes in CRC and has the potential to be utilized as a therapeutic agent for treating CRC.
CELL BIOCHEMISTRY AND FUNCTION
(2023)