Review
Cell Biology
Ying Ye, Xi Chen, Wensheng Zhang
Summary: Embryonic stem cells have a unique ability to maintain and regulate the balance between self-renewal and multi-lineage cellular differentiation, largely dependent on gene expression regulations. Chromatin remodeling complexes play a crucial role in promoting chromatin structural changes that ultimately affect ESC fate choices.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Article
Chemistry, Medicinal
Sandra C. Ordonez-Rubiano, Chad A. Maschinot, Sijie Wang, Surbhi Sood, Luisa F. Baracaldo-Lancheros, Brayden P. Strohmier, Alexander J. McQuade, Brian C. Smith, Emily C. Dykhuizen
Summary: The researchers discovered the important role of BRD7 in cancer but lacked selective chemical probes to study its function in disease. Through crystal structure analysis, they identified a specific binding pocket exclusive to BRD7. They designed a series of ligands and identified two inhibitors, 1-78 and 2-77, with increased selectivity towards BRD7, which showed submicromolar affinity to the BRD7 bromodomain. Finally, they validated the utility and selectivity of these compounds in cell-based models of prostate cancer.
JOURNAL OF MEDICINAL CHEMISTRY
(2023)
Article
Cell Biology
Saul Carcamo, Christie B. Nguyen, Elena Grossi, Dan Filipescu, Aktan Alpsoy, Alisha Dhiman, Dan Sun, Sonali Narang, Jochen Imig, Tiphaine C. Martin, Ramon Parsons, Iannis Aifantis, Aristotelis Tsirigos, Julio A. Aguirre-Ghiso, Emily C. Dykhuizen, Dan Hasson, Emily Bernstein
Summary: ARID2 is the most commonly mutated member of the SWI/SNF complex in melanoma. Its deficiency leads to defective assembly of the PBAF complex and redistribution of the BAF complex. ARID2 depletion results in reduced chromatin accessibility and gene expression in certain regions, while enhancers occupied by the BAF complex gain accessibility and gene expression related to invasion. The occupancy of melanoma-relevant transcription factors is affected by altered accessibility, and correlates significantly with the observed transcriptional changes. Furthermore, ARID2-deficient cells acquire the ability to colonize distal organs in multiple animal models.
Article
Oncology
Corey M. Gill, Joshua Loewenstern, John W. Rutland, Hanane Arib, Margaret Pain, Melissa Umphlett, Yayoi Kinoshita, Russell B. McBride, Joshua Bederson, Michael Donovan, Robert Sebra, Mary Fowkes, Raj K. Shrivastava
Summary: ARID1A mutations occur with similar frequency between low and high-grade meningiomas, but ARID1A mutations are independently prognostic of worse prognosis beyond clinical and histopathologic features.
JOURNAL OF CANCER RESEARCH AND CLINICAL ONCOLOGY
(2021)
Article
Oncology
Theresa Bluemn, Jesse Schmitz, Yongwei Zheng, Robert Burns, Shikan Zheng, Joshua DeJong, Luke Christiansen, Olivia Arnold, Jesus Izaguirre-Carbonell, Demin Wang, Aniruddha J. Deshpande, Nan Zhu
Summary: The SWI/SNF nucleosome remodeling complexes have diverse roles in AML leukemogenesis, with Arid2 enhancing leukemia initiation but being required for leukemia maintenance, while the deletion of Arid1b promotes leukemogenesis at any stage.
Article
Multidisciplinary Sciences
Young-Kwon Park, Ji-Eun Lee, Zhijiang Yan, Kaitlin McKernan, Tommy O'Haren, Weidong Wang, Weiqun Peng, Kai Ge
Summary: The study reveals that BAF and MLL4 are interdependent in promoting enhancer activation by lineage-determining transcription factors during adipogenesis, providing a positive feedback mechanism for the activation of cell type-specific enhancers.
NATURE COMMUNICATIONS
(2021)
Article
Oncology
Masayuki Hagiwara, Yota Yasumizu, Nami Yamashita, Hasan Rajabi, Atsushi Fushimi, Mark D. Long, Wei Li, Atrayee Bhattacharya, Rehan Ahmad, Mototsugu Oya, Song Liu, Donald Kufe
Summary: MUC1-C associates with E2F1 and activates a novel pathway related to prostate cancer stem cell function.
Article
Plant Sciences
Elzbieta Sarnowska, Szymon Kubala, Pawel Cwiek, Sebastian Sacharowski, Paulina Oksinska, Jaroslaw Steciuk, Magdalena Zaborowska, Jakub M. Szurmak, Roman Dubianski, Anna Maassen, Malgorzata Stachowiak, Bruno Huettel, Monika Ciesla, Klaudia Nowicka, Anna T. Rolicka, Saleh Alseekh, Ernest Bucior, Rainer Franzen, Anna Skoneczna, Malgorzata A. Domagalska, Samija Amar, Mohammad-Reza Hajirezaei, Janusz A. Siedlecki, Alisdair R. Fernie, Seth J. Davis, Tomasz J. Sarnowski
Summary: The Arabidopsis ERECTA family of leucine-rich repeat receptor-like kinases (LRR-RLKs) controls various developmental processes and interacts with the SWI/SNF chromatin remodeling complex. The er/erl1/erl2 mutant shows impaired gibberellin signaling, decreased SWI3B protein level, and altered chromatin structure. ERf-SWI/SNF CRC interaction plays an important role in transcriptional control of gibberellin receptors.
Article
Cell Biology
Hugang Feng, Karen A. Lane, Theodoros Roumeliotis, Penny A. Jeggo, Navita Somaiah, Jyoti S. Choudhary, Jessica A. Downs
Summary: PBRM1 deficiency is associated with the response to immunotherapy in renal cancer, potentially through DNA damage-induced inflammatory signaling and maintenance of the G2/M checkpoint. The mutational status of PBRM1 can predict the response of renal cancer to immunotherapy.
GENES & DEVELOPMENT
(2022)
Review
Biochemistry & Molecular Biology
Ji-Yun Shang, Xin-Jian He
Summary: Adenosine triphosphate-dependent chromatin remodeling complexes play a crucial role in transcription, DNA replication, and genome stability regulation in eukaryotes. However, the study of chromatin remodeling complexes in plants lags behind yeast and animals. Recent research has identified and characterized the composition and function of chromatin remodeling enzymes in Arabidopsis, providing a foundation for further investigation into the molecular mechanisms.
JOURNAL OF INTEGRATIVE PLANT BIOLOGY
(2022)
Review
Biochemistry & Molecular Biology
Ieva Vaicekauskaite, Rasa Sabaliauskaite, Juozas Rimantas Lazutka, Sonata Jarmalaite
Summary: Ovarian cancer is the fifth leading cause of women's death from cancers, with high mortality rate due to late presence and lack of modern diagnostic tools. It is a highly heterogeneous disease, leading to early treatment failure. Exploring molecular mechanisms of ovarian cancer can enhance our understanding and provide new treatment options.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Review
Pharmacology & Pharmacy
Andrew Hartley, Hing Y. Leung, Imran Ahmad
Summary: This review consolidates current knowledge of the BAF complex in prostate cancer and explores potential therapeutic approaches. Personalized medicine could be used to target mutated BAF complex and exploit synthetic lethal strategies in patient stratification for improved treatment outcomes.
EXPERT OPINION ON DRUG DISCOVERY
(2021)
Article
Biochemistry & Molecular Biology
Corinna Lieleg, Ana Novacic, Sanja Musladin, Andrea Schmid, Goezde Gueclueler Akpinar, Slobodan Barbaric, Philipp Korber
Summary: Chromatin remodeling by ATP-dependent enzymes is crucial for genomic processes. The recruitment of remodelers, such as the SWI/SNF complex, in the removal of nucleosomes in yeast PHO gene induction is specific and may affect the outcome of remodeling.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Cell Biology
Mingxuan Li, Yutao Shen, Yujia Xiong, Shuai Wang, Chuzhong Li, Jiwei Bai, Yazhuo Zhang
Summary: The study revealed that SMARCB1 functions as a tumor suppressor in chordoma by inhibiting the malignant phenotype of chordoma cells. SMARCB1 inhibits autophagy through direct binding to the ATG5 promoter, leading to decreased ATG5 expression and impaired autophagy. High ATG5 expression is associated with adverse outcomes in recurrent chordoma patients.
CELL PROLIFERATION
(2021)
Article
Immunology
Dominik Schmiedel, Hadas Hezroni, Amit Hamburg, Ziv Shulman
Summary: The research reveals that Brg1 plays a critical role in B cell proliferation and germinal center formation through selective interactions with enhancers. Recruitment of Brg1 to enhancers increases chromatin accessibility, leading to the regulation of gene expression associated with cell cycle and supporting B cell proliferation and the formation of germinal center reactions.
FRONTIERS IN IMMUNOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Muzammil Ahmad, Yutong Xue, Seung Kyu Lee, Jennifer L. Martindale, Weiping Shen, Wen Li, Sige Zou, Maria Ciaramella, Helene Debat, Marc Nadal, Fenfei Leng, Hongliang Zhang, Quan Wang, Grace Ee-Lu Siaw, Hengyao Niu, Yves Pommier, Myriam Gorospe, Tao-Shih Hsieh, Yuk-Ching Tse-Dinh, Dongyi Xu, Weidong Wang
NUCLEIC ACIDS RESEARCH
(2016)
Article
Biochemistry & Molecular Biology
Muzammil Ahmad, Weiping Shen, Wen Li, Yutong Xue, Sige Zou, Dongyi Xu, Weidong Wang
NUCLEIC ACIDS RESEARCH
(2017)
Article
Biochemistry & Molecular Biology
Florian Rohleder, Jing Huang, Yutong Xue, Jochen Kuper, Adam Round, Michael Seidman, Weidong Wang, Caroline Kisker
NUCLEIC ACIDS RESEARCH
(2016)
Article
Cell Biology
Chen Ling, Jing Huang, Zhijiang Yan, Yongjiang Li, Mioko Ohzeki, Masamichi Ishiai, Dongyi Xu, Minoru Takata, Michael Seidman, Weidong Wang
Article
Chemistry, Medicinal
Nihar Ranjan, Sandra Story, Geraldine Fulcrand, Fenfei Leng, Muzammil Ahmad, Ada King, Souvik Sur, Weidong Wang, Yuk-Ching Tse-Dinh, Dev P. Arya
JOURNAL OF MEDICINAL CHEMISTRY
(2017)
Article
Biochemistry & Molecular Biology
Muzammil Ahmad, Dongyi Xu, Weidong Wang
Article
Oncology
Jiyoung Kim, Ji Heon Noh, Seung-Kyu Lee, Rachel Munk, Alexei Sharov, Elin Lehrmann, Yongqing Zhang, Weidong Wang, Kotb Abdelmohsen, Myriam Gorospe
Article
Multidisciplinary Sciences
Jian Sima, Zhijiang Yan, Yaohui Chen, Elin Lehrmann, Yongqing Zhang, Ramaiah Nagaraja, Weidong Wang, Zhong Wang, David Schlessinger
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2018)
Article
Multidisciplinary Sciences
Seung Kyu Lee, Yutong Xue, Weiping Shen, Yongqing Zhang, Yuyoung Joo, Muzammil Ahmad, Madoka Chinen, Yi Ding, Wai Lim Ku, Supriyo De, Elin Lehrmann, Kevin G. Becker, Elissa P. Lei, Keji Zhao, Sige Zou, Alexei Sharov, Weidong Wang
NATURE COMMUNICATIONS
(2018)
Article
Cell Biology
Jing Huang, Jing Zhang, Marina A. Bellani, Durga Pokharel, Julia Gichimu, Ryan C. James, Himabindu Gali, Chen Ling, Zhijiang Yan, Dongyi Xu, Junjie Chen, Amom Ruhikanta Meetei, Lei Li, Weidong Wang, Michael M. Seidman
Review
Genetics & Heredity
Seung Kyu Lee, Weidong Wang
Article
Multidisciplinary Sciences
Yuyoung Joo, Yutong Xue, Yue Wang, Ross A. McDevitt, Nirnath Sah, Simone Bossi, Shuaikun Su, Seung Kyu Lee, Wei Peng, Aoji Xie, Yongqing Zhang, Yi Ding, Wai Lim Ku, Soumita Ghosh, Kenneth Fishbein, Weiping Shen, Richard Spencer, Kevin Becker, Keji Zhao, Mark P. Mattson, Henriette van Praag, Alexei Sharov, Weidong Wang
NATURE COMMUNICATIONS
(2020)
Article
Multidisciplinary Sciences
Young-Kwon Park, Ji-Eun Lee, Zhijiang Yan, Kaitlin McKernan, Tommy O'Haren, Weidong Wang, Weiqun Peng, Kai Ge
Summary: The study reveals that BAF and MLL4 are interdependent in promoting enhancer activation by lineage-determining transcription factors during adipogenesis, providing a positive feedback mechanism for the activation of cell type-specific enhancers.
NATURE COMMUNICATIONS
(2021)
Article
Biochemistry & Molecular Biology
Shuaikun Su, Yutong Xue, Seung Kyu Lee, Yongqing Zhang, Jinshui Fan, Supriyo De, Alexei Sharov, Weidong Wang
Summary: In response to starvation, the complex of topoisomerase 3b (TOP3B) and TDRD3 can enhance both transcriptional activation and repression, similar to other topoisomerases. The genes enhanced by TOP3B-TDRD3 are long and highly-expressed, and are preferentially stimulated by other topoisomerases as well. Inactivation of TOP3B, TDRD3, or TOP3B topoisomerase activity disrupts transcription of both starvation-activated genes (SAGs) and starvation-repressed genes (SRGs). Additionally, TOP3B-TDRD3 and elongating RNAPII display increased binding to TOP3B-dependent SAGs in response to starvation.
NUCLEIC ACIDS RESEARCH
(2023)
Article
Biochemistry & Molecular Biology
Tianyi Zhang, Yutong Xue, Shuaikun Su, Valerie Altouma, Katherine Ho, Jennifer L. Martindale, Seung-Kyu Lee, Weiping Shen, Aaron Park, Yongqing Zhang, Supriyo De, Myriam Gorospe, Weidong Wang
Summary: Nocte, an RNA-binding protein, plays a crucial role in Drosophila eye development by enhancing translation of mRNAs with long uORFs, particularly glass mRNA. Nocte interacts with translation factors eIF3 and Rack1 through its BAT2 domain to counteract translational suppression caused by long uORFs. Disruption of Nocte function can lead to developmental defects and neurological disorders.
NUCLEIC ACIDS RESEARCH
(2023)