Editorial Material
Plant Sciences
Yusheng Zhao, Zhiyong Liu
Summary: Zhang et al. (2023) demonstrated through association analysis that the wheat E3 ubiquitin ligase TaAIRP2-1B positively regulates spike length by involving an upstream regulator, TaERF3, and a downstream target, TaHIPP3. This study provides a deeper understanding of spike architecture regulation and offers an alternative molecular module for designing wheat with increased yield potential.
JOURNAL OF EXPERIMENTAL BOTANY
(2023)
Article
Plant Sciences
Jinhao Sun, Cuiling Yuan, Meng Wang, Anming Ding, Guohua Chai, Yuhe Sun, Gongke Zhou, Dahai Yang, Yingzhen Kong
Summary: In this study, the regulatory mechanisms of pectin demethylesterification were investigated, revealing that the mud1 Arabidopsis mutant has increased mucilage adherence due to increased PMEs activities and decreased DM. It was suggested that MUD1 may act as an ubiquitin ligase to regulate the DM of pectin by post-transcriptionally removing proteins that negatively regulate PMEs in seed coat mucilage.
PLANT PHYSIOLOGY AND BIOCHEMISTRY
(2021)
Article
Biochemistry & Molecular Biology
Orsolya Bilkei-Gorzo, Tiaan Heunis, Jose Luis Marin-Rubio, Francesca Romana Cianfanelli, Benjamin Bernard Armando Raymond, Joseph Inns, Daniela Fabrikova, Julien Peltier, Fiona Oakley, Ralf Schmid, Anetta Hartlova, Matthias Trost
Summary: This study reveals the importance of phagosomal ubiquitylation and the E3 ubiquitin ligase RNF115 in regulating innate immune functions during bacterial infections.
Review
Plant Sciences
Guoliang Han, Ziqi Qiao, Yuxia Li, Zongran Yang, Chengfeng Wang, Yuanyuan Zhang, Lili Liu, Baoshan Wang
Summary: RING zinc finger proteins play important roles in plant growth, development, and the response to abiotic stresses. They function as E3 ubiquitin ligases by modifying and degrading stress-related proteins in the cytoplasm and nucleus. Under abiotic stress, they may act as sensors or ABA receptors on the plasma membrane, or as transcription factors in the nucleus to regulate downstream gene expression.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Chemistry, Medicinal
Adam G. Bond, Conner Craigon, Kwok-Ho Chan, Andrea Testa, Athanasios Karapetsas, Rotimi Fasimoye, Thomas Macartney, J. Julian Blow, Dario R. Alessi, Alessio Ciulli
Summary: This study describes the design and development of a new protein degradation system utilizing a variant of the Brd4 bromodomain as a degradation tag. The system effectively degrades BromoTagged proteins in a fast, selective manner, showing favorable pharmacokinetic profile in mice. This system expands the arsenal of chemical genetic degradation tools for manipulating protein levels and exploring therapeutic potential in cells and in vivo.
JOURNAL OF MEDICINAL CHEMISTRY
(2021)
Article
Cell Biology
Martin P. Schwalm, Lena M. Berger, Maximilian N. Meuter, James D. Vasta, Cesear R. Corona, Sandra Roehm, Benedict-Tilman Berger, Frederic Farges, Sebastian M. Beinert, Franziska Preuss, Viktoria Morasch, Vladimir V. Rogov, Sebastian Mathea, Krishna Saxena, Matthew B. Robers, Susanne Mueller, Stefan Knapp
Summary: E3 ligases play a crucial role in regulating protein homeostasis by recruiting substrate proteins to the proteasomal degradation machinery. Recent research has focused on the Baculovirus IAP Repeat (BIR) family of E3 ligases, which contain a structurally conserved but diverse protein interaction domain. The Inhibitors of Apoptosis (IAP) family, which typically have three BIR domains, are promising drug targets. However, there is currently a lack of assay tools to evaluate the selectivity of inhibitors in this target area.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Review
Biochemistry & Molecular Biology
Rui Zhang, Shaoqing Shi
Summary: HECT-type E3 ubiquitin ligases play a vital role in controlling protein function and stability, and members of the NEDD4 family have critical roles in dysregulation of autophagy in cancer cells. This review focuses on the role of NEDD4 E3 ligases in defective autophagy in cancer cells, discussing their function, substrates, and signaling pathways, providing a basis for cancer treatment through modulation of these ligases.
MOLECULAR MEDICINE
(2023)
Review
Immunology
Haoran Cui, Yaxian Zhang, Leiliang Zhang
Summary: Poxviruses have evolved various mechanisms to evade innate immunity, some of which involve poxvirus-encoded E3 ubiquitin ligases and adaptor proteins. These proteins can be categorized into five groups based on their functional domains and ubiquitin transfer mechanisms. Most known substrates of poxvirus E3 ubiquitin ligases are components of the innate immune system. Current research progress provides mechanistic insights into the interaction between these viruses and their hosts.
FRONTIERS IN IMMUNOLOGY
(2021)
Article
Plant Sciences
Jialing Zhang, Chaonan Li, Long Li, Yajun Xi, Jingyi Wang, Xinguo Mao, Ruilian Jing
Summary: TaAIRP2-1B regulates spike length by facilitating TaHIPP3 degradation, and the haplotype Hap-1B-1 of TaAIRP2-1B is a favorable natural variation for increasing spike length in wheat. This study provides insights into the role of E3 ubiquitin ligase genes in wheat development and identifies TaAIRP2-1B as a key regulator of spike length. The findings also offer genetic resources and markers for wheat molecular breeding.
JOURNAL OF EXPERIMENTAL BOTANY
(2023)
Review
Biochemistry & Molecular Biology
Ishita Tripathi-Giesgen, Christian Behrends, Arno F. Alpi
Summary: The ubiquitin system plays a crucial role in the host cellular defense program against bacterial infection, especially when certain bacteria are exposed to the host cytosol during invasion. Host cell E3 ubiquitin ligases contribute to the formation of a protective ubiquitin coat on invading pathogens, with their divergent ubiquitin conjugation mechanisms influencing the complexity of the anti-bacterial coating. Bacteria have evolved strategies to evade the activities of the host ubiquitin system.
Review
Biochemistry & Molecular Biology
Dong Wang, Yuanming Zou, Xinyue Huang, Zeyu Yin, Mohan Li, Jiaqi Xu, Boquan Wu, Da Li, Ying Zhang, Yingxian Sun, Xingang Zhang, Naijin Zhang
Summary: The ubiquitin-proteasome system is crucial for regulating protein levels in cells, and SMURF1 and SMURF2 are important components that maintain physiological processes by regulating the stability of multiple proteins. The regulatory functions of SMURFs in disease progression are complex, either facilitative or inhibitory, and understanding their mechanisms offers potential therapeutic targets and new avenues for research.
Review
Biochemistry & Molecular Biology
Dong Wang, Yuanming Zou, Xinyue Huang, Zeyu Yin, Mohan Li, Jiaqi Xu, Boquan Wu, Da Li, Ying Zhang, Yingxian Sun, Xingang Zhang, Naijin Zhang
Summary: The ubiquitin-proteasome system plays a crucial role in regulating protein levels in cells. SMURF1 and SMURF2 are key components in this system, responsible for regulating protein stability and maintaining physiological processes such as cell migration, proliferation, and apoptosis. They also play significant roles in disease progression, with complex regulatory functions. This review focuses on the mechanisms by which SMURF1 and SMURF2 regulate disease progression in non-cancerous diseases, providing potential therapeutic targets for various diseases and new research avenues for SMURF proteins.
Article
Biochemistry & Molecular Biology
Yi Zheng, Jian Deng, Lulu Han, Meng-Wei Zhuang, Yanwen Xu, Jing Zhang, Mei-Ling Nan, Yang Xiao, Peng Zhan, Xinyong Liu, Chengjiang Gao, Pei-Hui Wang
Summary: This study reveals the involvement of the stress response pathway and innate antiviral immunity in the pathogenic mechanism of SARS-CoV-2. NSP5 and N protein of SARS-CoV-2 were found to attenuate the formation of antiviral stress granules (avSG). NSP5 suppressed avSG formation and disrupted the RIG-I-MAVS complex to weaken the RIG-I-mediated antiviral response, while N protein specifically targeted cofactors upstream of RIG-I and affected the recognition of dsRNA by RIG-I.
SIGNAL TRANSDUCTION AND TARGETED THERAPY
(2022)
Article
Biochemistry & Molecular Biology
James Ross Terrell, Sijia Tang, Oluwafoyinsola Omobodunde Faniyi, In Ho Jeong, Jun Yin, Bhavitavya Nijampatnam, Sadanandan E. Velu, Wei Wang, Ruiwen Zhang, Ming Luo
Summary: Mouse double minute 2 homolog (MDM2) is an E3 ubiquitin-protein ligase that is involved in ubiquitin transfer and is elevated in cancer cells. This study solved crystal structures of MDM2 RING domain in complex with inhibitors Inulanolide A and MA242. The inhibitors bind at the C-terminus of MDM2 RING domain and disrupt interactions with the E2-Ubiquitin complex, inhibiting ubiquitin transfer for a broad spectrum of substrates.
Review
Biochemistry & Molecular Biology
Tianyuan Xie, Hai Qin, Zhengdong Yuan, Yiwen Zhang, Xiaoman Li, Lufeng Zheng
Summary: RING finger protein 168 (RNF168) is an E3 ubiquitin ligase that plays an important role in the DNA double-strand damage repair pathway. It has been found to be significantly involved in the occurrence and development of various cancers. Furthermore, RNF168 contributes to tumor cell drug resistance by enhancing DNA repair ability and regulating protein degradation. This paper summarizes and prospects the research progress of RNF168's structure, main functions, and its roles and mechanisms in tumorigenesis.
Article
Cell & Tissue Engineering
Kazunori Gomi, Michelle R. Staudt, Jacqueline Salit, Robert J. Kaner, Jonna Heldrich, Allison M. Rogalski, Vanessa Arbelaez, Ronald G. Crystal, Matthew S. Walters
STEM CELL REVIEWS AND REPORTS
(2016)
Article
Cell & Tissue Engineering
Kazunori Gomi, Michelle R. Staudt, Jacqueline Salit, Robert J. Kaner, Jonna Heldrich, Allison M. Rogalski, Vanessa Arbelaez, Ronald G. Crystal, Matthew S. Walters
STEM CELL REVIEWS AND REPORTS
(2016)
Article
Cell & Tissue Engineering
Kazunori Gomi, Yongjiang Tang, Vanessa Arbelaez, Ronald G. Crystal, Matthew S. Walters
STEM CELL REVIEWS AND REPORTS
(2017)
Article
Cell & Tissue Engineering
Kazunori Gomi, Yongjiang Tang, Vanessa Arbelaez, Ronald G. Crystal, Matthew S. Walters
STEM CELL REVIEWS AND REPORTS
(2017)
Article
Critical Care Medicine
Wu-Lin Zuo, Sushila A. Shenoy, Sheng Li, Sarah L. O'Beirne, Yael Strulovici-Barel, Philip L. Leopold, Guoqing Wang, Michelle R. Staudt, Matthew S. Walters, Christopher Mason, Robert J. Kaner, Jason G. Mezey, Ronald G. Crystal
AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE
(2018)
Article
Multidisciplinary Sciences
Matthew S. Walters, Jacqueline Salit, Jin Hyun Ju, Michelle R. Staudt, Robert J. Kaner, Allison M. Rogalski, Teniola B. Sodeinde, Riyaad Rahim, Yael Strulovici-Barel, Jason G. Mezey, Ahmad M. Almulla, Hisham Sattar, Mai Mahmoud, Ronald G. Crystal
Article
Virology
Wenxin Wu, Wei Zhang, Lili Tian, Brent R. Brown, Matthew S. Walters, Jordan P. Metcalf
Article
Biochemistry & Molecular Biology
Manish Bodas, Andrew R. Moore, Bharathiraja Subramaniyan, Constantin Georgescu, Jonathan D. Wren, Willard M. Freeman, Brent R. Brown, Jordan P. Metcalf, Matthew S. Walters
Summary: This study found that NOTCH3 signaling pathway in cigarette smoke regulates goblet cell differentiation, ultimately affecting the pathophysiology of COPD.
AMERICAN JOURNAL OF RESPIRATORY CELL AND MOLECULAR BIOLOGY
(2021)
Article
Multidisciplinary Sciences
Ashish Saxena, Matthew S. Walters, Jae-Hung Shieh, Ling-Bo Shen, Kazunori Gomi, Robert J. Downey, Ronald G. Crystal, Malcolm A. S. Moore
Summary: The airway basal cells communicate with endothelial cells through exosome-enriched EVs, promoting cell survival via VEGFR2 activation and involvement of VEGFA. However, downstream signaling pathways involved in airway basal cell EVs may be distinct from other signaling pathways.
SCIENTIFIC REPORTS
(2021)
Article
Virology
Bharathiraja Subramaniyan, Jason L. Larabee, Manish Bodas, Andrew R. Moore, Anthony W. G. Burgett, Dean A. Myers, Constantin Georgescu, Jonathan D. Wren, James F. Papin, Matthew S. Walters
Summary: The study reveals that SARS-CoV-2 infection in older individuals leads to an early proinflammatory response and a delayed interferon response, along with changes in genes and pathways associated with cell death and senescence.
Article
Cell Biology
Manish Bodas, Bharathiraja Subramaniyan, Andrew R. Moore, Jordan P. Metcalf, Sarah R. Ocanas, Willard M. Freeman, Constantin Georgescu, Jonathan D. Wren, Matthew S. Walters
Summary: The study reveals HEYL as a key regulator of airway epithelial differentiation downstream of NOTCH3 signaling. Expression level of HEYL in bronchial epithelial cells is closely related to cell differentiation capacity, and its overexpression can restore the differentiation capacity of COPD cells towards normal airway epithelium.
Letter
Biochemistry & Molecular Biology
Bharathiraja Subramaniyan, Jason L. Larabee, Manish Bodas, Andrew R. Moore, Anthony W. G. Burgett, James F. Papin, Matthew S. Walters
AMERICAN JOURNAL OF RESPIRATORY CELL AND MOLECULAR BIOLOGY
(2023)
Review
Biochemistry & Molecular Biology
Manish Bodas, Bharathiraja Subramaniyan, Harry Karmouty-Quintana, Peter F. Vitiello, Matthew S. Walters
Summary: The lung, as the respiratory organ of mammals, plays a crucial role in gas exchange and is regulated by the NOTCH signaling pathway. Notably, dysregulation of NOTCH3 signaling is associated with the development and pathophysiology of various adult lung diseases.
EXPERT REVIEWS IN MOLECULAR MEDICINE
(2022)
Article
Cell Biology
Guoqing Wang, Haixia Zhou, Yael Strulovici-Barel, Mohammed Al-Hijji, Xuemei Ou, Jacqueline Salit, Matthew S. Walters, Michelle R. Staudt, Robert J. Kaner, Ronald G. Crystal
Article
Respiratory System
Fumihiro Ogawa, Matthew S. Walters, Afrah Shafquat, Sarah L. O'Beirne, Robert J. Kaner, Jason G. Mezey, Haijun Zhang, Philip L. Leopold, Ronald G. Crystal
RESPIRATORY RESEARCH
(2019)
