Article
Microbiology
Valentina Stein, Bernhard Blank-Landeshammer, Ramona Marker, Albert Sickmann, Ulrich Kueck
Summary: The study demonstrates the involvement of the germinal center kinase SmKIN3 from the fungus Sordaria macrospora in sexual development and hyphal septation, regulated by the STRIPAK multi-subunit complex. Phosphorylation of SmKIN3 by STRIPAK affects controlled septum formation. The research sheds light on the importance of STRIPAK in regulating protein phosphorylation and its impact on cellular processes.
Article
Cell Biology
Bas Ponsioen, Jasmin B. Post, Julian R. Buissant des Amorie, Dimitrios Laskaris, Ravian L. van Ineveld, Simone Kersten, Andrea Bertotti, Francesco Sassi, Francois Sipieter, Benjamin Cappe, Sander Mertens, Ingrid Verlaan-Klink, Sylvia F. Boj, Rob G. J. Vries, Holger Rehmann, Peter Vandenabeele, Franck B. Riquet, Livio Trusolino, Johannes L. Bos, Hugo J. G. Snippert
Summary: The study illustrates how EGFR activity enhances signal transduction efficiency in KRAS or BRAF mutant MAPK pathways, revealing a potential mechanism for using EGFR inhibitors in colorectal cancer with KRAS and BRAF mutations.
NATURE CELL BIOLOGY
(2021)
Article
Chemistry, Multidisciplinary
Cheng Chen, Chuan-dong Cheng, Hong Wu, Zuo-wei Wang, Li Wang, Zong-ru Jiang, Ao-li Wang, Chen Hu, Yong-fei Dong, Wan-xiang Niu, Shuang Qi, Zi-ping Qi, Jing Liu, Wen-chao Wang, Chao-shi Niu, Qing-song Liu
Summary: The study showed that osimertinib could effectively suppress the proliferation of a subset of EGFR-negative GBM cells by inhibiting MNK kinase activities and eIF4E phosphorylation. Additionally, oral administration of osimertinib significantly suppressed tumor growth and could be a potential new drug candidate for EGFR-negative GBM patients.
ACTA PHARMACOLOGICA SINICA
(2021)
Article
Multidisciplinary Sciences
Jun-ichiro Takahashi, Shiori Nakamura, Iimi Onuma, Yue Zhou, Satoru Yokoyama, Hiroaki Sakurai
Summary: Monoclonal antibodies targeting EGFR have limited clinical efficacy, but non-canonical EGFR endocytosis may enhance their therapeutic efficiency.
SCIENTIFIC REPORTS
(2022)
Article
Biochemistry & Molecular Biology
Peng Liu, Fuqiang Zu, Hui Chen, Xiaoli Yin, Xiaodong Tan
Summary: This study revealed that exosomal DNAJB11 promotes cell development in pancreatic cancer cells by regulating the expression of HSPA5 and activating the endoplasmic reticulum stress pathway. Additionally, exosomal DNAJB11 can regulate the expression of EGFR and activate the MAPK signaling pathway. Clinical studies suggest that exosomal DNAJB11 has the potential to serve as a diagnostic biomarker and therapeutic target for pancreatic cancer.
CELLULAR & MOLECULAR BIOLOGY LETTERS
(2022)
Article
Engineering, Biomedical
Yide He, Zhe Li, Xin Ding, Boya Xu, Jinjin Wang, Yi Li, Fanghao Chen, Fanhui Meng, Wen Song, Yumei Zhang
Summary: This study investigates the effect of implant surface topography on monocyte/macrophage lineage osteoclastogenesis and subsequent osteogenesis. The nanoporous surface significantly accelerates early bone formation, regulates macrophage recruitment and osteoclast formation, and modulates the secretion of clastokines to promote bone regeneration.
BIOACTIVE MATERIALS
(2022)
Article
Microbiology
Yamin Meng, Xingyuan Tang, Yuting Bao, Mingxiang Zhang, Dan Tang, Xing Zhang, Xiaoxuan Chen, Weiguo Fang
Summary: Ascomycete fungi rely on the formation of asexual conidia for survival and dispersal, and several upstream signaling regulators control this process. This study identified a novel signaling cascade involving the Slt2-MAPK pathway and the transcription factor RNS1, which activates the central regulatory pathway for conidiation in Ascomycete fungi.
Article
Cell Biology
Gang Wang, Li Ma, Bowen Wang, Fentang Gao, Jianfeng Li, Hongyi Cai, Juan Wang, Tiancheng Zhang, Hao Guo, Ping Xie, Yi Li
Summary: Tanshinone IIA can counteract radiation-induced myocardial injury by regulating the p38/p53 pathway, restoring cardiomyocyte proliferation and reducing cell apoptosis.
MEDIATORS OF INFLAMMATION
(2022)
Review
Oncology
Jiaen Wei, Ruining Liu, Xiyun Hu, Tingen Liang, Zhiran Zhou, Zunnan Huang
Summary: This study reviewed marine compounds targeting the MAPK signaling pathway and their applications in cancer therapy. By screening pure compounds and describing their anticancer mechanisms and protein expression changes, it provided foundational information for the development of marine compound-based antitumor drugs.
JOURNAL OF CANCER RESEARCH AND CLINICAL ONCOLOGY
(2021)
Article
Dentistry, Oral Surgery & Medicine
Jinwen Liu, Xue Qiao, Jiayi Liu, Ming Zhong
Summary: Six novel circRNAs were identified and validated in ameloblastoma. The interaction between hsa_circ_0089153/hsa-miR-608 and downstream genes was confirmed. In vitro experiments demonstrated the suppressive function of miR-608 on EGFR and p53. Functions were mainly enriched in MAPK signaling pathways regulating AB progression.
Article
Biochemistry & Molecular Biology
Kento Okamoto, Toshinori Ando, Hiroki Izumi, Susumu S. Kobayashi, Tomoaki Shintani, J. Silvio Gutkind, Souichi Yanamoto, Mutsumi Miyauchi, Mikihito Kajiya
Summary: The Hippo signaling pathway and its downstream effector YAP play a central role in cell proliferation. Dysregulation of the Hippo pathway triggers YAP hyperactivation, thereby inducing head and neck squamous cell carcinoma (HNSCC). Our findings suggest that co-targeting both AXL and EGFR represent a promising therapeutic approach in patients with EGFR-altered cancers.
Article
Biochemistry & Molecular Biology
Yuan Li, Hanwei Cao, Tingting Dong, Xiaoke Wang, Liang Ma, Kun Li, Huiqiang Lou, Chun-Peng Song, Dongtao Ren
Summary: The authors found that the activation of MITOGEN-ACTIVATED PROTEIN KINASE 3 and MPK6 increases SPT activity and induces the accumulation of long-chain sphingolipids in Arabidopsis thaliana. They also discovered that MPK3 and MPK6 phosphorylate AtLCB1, which enhances its binding with AtLCB2b, promotes its binding with ssSPTs, and stimulates the formation of active SPT complexes.
JOURNAL OF INTEGRATIVE PLANT BIOLOGY
(2023)
Review
Oncology
Yuxi Cheng, Juan Chen, Yuxin Shi, Xiaodan Fang, Zhangui Tang
Summary: The aim of this review is to summarize our studies on the signaling pathways involved in the development of oral cancer and several molecular targeting technologies combined with immune checkpoint therapies to provide new therapeutic strategies for oral squamous cell carcinoma. Oral squamous cell carcinoma accounts for 95% of human head and neck squamous cell carcinoma cases and has a poor prognosis. The mitogen-activated protein kinase (MAPK) signaling pathway is activated in over 50% of human oral cancer cases. We review the research progress on the MAPK signaling pathway and discuss its potential as a therapeutic strategy for oral squamous cell carcinoma.
Article
Engineering, Biomedical
Hongbao Fang, Lianting Hu, Qixin Chen, Shanshan Geng, Kangqiang Qiu, Chengjun Wang, Mingang Hao, Zhiqi Tian, Huimin Chen, Lei Liu, Jun-Lin Guan, Yuncong Chen, Lei Dong, Zijian Guo, Weijiang He, Jiajie Diao
Summary: In this study, a stable super-resolution imaging probe was developed for the quantitative detection of endoplasmic reticulum (ER) damage and stress. This probe can selectively target ER and track changes in ER hydrophobicity during reticulophagy, a specific autophagy process, by fluorescence intensity and morphology. Additionally, a topological analytical tool was developed to detect structural changes in ER and quantitatively identify reticulophagy. Overall, the new probe and analytical strategy show promise for the detection and analysis of subtle ER damage and stress.
Article
Biochemistry & Molecular Biology
Huizhi Wang, Yuntao Ding, Yuxin He, Zhengyue Yu, Yujing Zhou, Aihua Gong, Min Xu
Summary: The study found that UCA1 is highly expressed in pancreatic cancer tissues compared to normal tissues, and high expression is associated with poor clinical outcomes. UCA1 promotes migration capability of pancreatic cancer cells by regulating mitochondrial dynamics through the MAPK/ERK pathway. These findings suggest that UCA1 may serve as a potential biomarker for prognosis in pancreatic cancer.
ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS
(2023)
Article
Biochemical Research Methods
James A. Sanford, Yang Wang, Joshua R. Hansen, Marina A. Gritsenko, Karl K. Weitz, Tyler J. Sagendorf, Cristina E. Tognon, Vladislav A. Petyuk, Wei-Jun Qian, Tao Liu, Brian J. Druker, Karin D. Rodland, Paul D. Piehowski
Summary: Global and phosphoproteome profiling is useful in clinical specimen analysis, but requires a large amount of biological material. This study investigates the impact of differential peptide loading on proteomic data quality and finds that decreased loading amounts result in increased missing values, higher quantitative variability, and fewer statistical differences.
JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY
(2022)
Review
Spectroscopy
Tai-Tu Lin, Tong Zhang, Reta B. Kitata, Tao Liu, Richard D. Smith, Wei-Jun Qian, Tujin Shi
Summary: Mutations play a central role in cancer development, but proteomic analysis of mutations lags behind genomic analysis. Proteomic analysis of mutations has the potential to advance cancer biomarker development and the discovery of new therapeutic targets. Targeted proteomics using selected reaction monitoring and parallel reaction monitoring has advantages over global proteomics. Top-down proteomics, which directly analyzes intact proteins, is also a promising approach for analyzing protein mutations.
MASS SPECTROMETRY REVIEWS
(2023)
Article
Biochemistry & Molecular Biology
Athena Lin, Paul D. Piehowski, Chia-Feng Tsai, Tatyana Makushok, Lian Yi, Ulises Diaz, Connie Yan, Diana Summers, Pranidhi Sood, Richard D. Smith, Tao Liu, Wallace F. Marshall
Summary: Cellular components are not randomly arranged with respect to the shape and polarity of the whole cell. The patterning within cells can extend to the level of individual proteins and mRNA. Proteomics combined with cellular fractionation has shown that most proteins localize to organelles but not how many have a polarized localization with respect to the large-scale polarity axes of the intact cell. The giant ciliate Stentor coeruleus provides a visible global pattern for analyzing protein distribution within a cell.
Article
Multidisciplinary Sciences
Guanlan Xu, Tiffany D. Grimes, Truman B. Grayson, Junqin Chen, Lance A. Thielen, Hubert M. Tse, Peng Li, Matt Kanke, Tai-Tu Lin, Athena A. Schepmoes, Adam C. Swensen, Vladislav A. Petyuk, Fernando Ovalle, Praveen Sethupathy, Wei-Jun Qian, Anath Shalev
Summary: Oral verapamil lowers inflammatory markers and daily insulin needs in subjects with type 1 diabetes and helps preserve pancreatic beta cell function for at least two years. Verapamil normalizes serum CHGA levels and reverses T1D-induced elevations in circulating proinflammatory T-follicular-helper cell markers. RNA-sequencing further confirms that verapamil regulates the thioredoxin system and promotes an anti-oxidative, anti-apoptotic, and immunomodulatory gene expression profile in human islets.
NATURE COMMUNICATIONS
(2022)
Article
Medicine, General & Internal
Giovanni Berardi, Laura Frey-Law, Kathleen A. Sluka, Emine O. Bayman, Christopher S. Coffey, Dixie Ecklund, Carol G. T. Vance, Dana L. Dailey, John Burns, Asokumar Buvanendran, Robert J. McCarthy, Joshua Jacobs, Xiaohong Joe Zhou, Richard Wixson, Tessa Balach, Chad M. Brummett, Daniel Clauw, Douglas Colquhoun, Steven E. Harte, Richard E. Harris, David A. Williams, Andrew C. Chang, Jennifer Waljee, Kathleen M. Fisch, Kristen Jepsen, Louise C. Laurent, Michael Olivier, Carl D. Langefeld, Timothy D. Howard, Oliver Fiehn, Jon M. Jacobs, Panshak Dakup, Wei-Jun Qian, Adam C. Swensen, Anna Lokshin, Martin Lindquist, Brian S. Caffo, Ciprian Crainiceanu, Scott Zeger, Ari Kahn, Tor Wager, Margaret Taub, James Ford, Stephani P. Sutherland, Laura D. Wandner
Summary: Chronic pain is a global health problem that reduces quality of life, but its clinical management has been hindered by incomplete understanding of risk factors and molecular mechanisms. The A2CPS Program aims to predict chronic pain development following surgery using biomarkers. This study collects standardized data from multiple clinical sites to advance understanding of the transition from acute to chronic postsurgical pain.
FRONTIERS IN MEDICINE
(2022)
Article
Chemistry, Analytical
Jacob J. Kennedy, Jeffrey R. Whiteaker, Richard G. Ivey, Aura Burian, Shrabanti Chowdhury, Chia-Feng Tsai, Tao Liu, ChenWei Lin, Oscar D. Murillo, Rachel A. Lundeen, Lisa A. Jones, Philip R. Gafken, Gary Longton, Karin D. Rodland, Steven J. Skates, John Landua, Pei Wang, Michael T. Lewis, Amanda G. Paulovich
Summary: Despite advances in proteomic technologies, the clinical translation of plasma biomarkers remains low. In this study, the researchers developed a new detection method, IS-PRM, which greatly expands the number of candidate biomarkers that can be tested with improved quantitative performance.
ANALYTICAL CHEMISTRY
(2022)
Article
Biochemical Research Methods
Adam C. Swensen, Dusan Velickovic, Sarah M. Williams, Ronald J. Moore, Le Z. Day, Sherry Niessen, Sarah Hennessy, Camilo Posso, Mara Monetti, Wei-Jun Qian, Jon Jacobs, Laurence Whiteley, Ying Zhu, Paul D. Piehowski
Summary: Despite their small size, islets of Langerhans play a crucial role in maintaining systemic energy balance in the body. This study uses advanced technologies to investigate the protein profiles of different features within the islet, revealing unique protein signatures in the inner vasculature that indicate increased innervation and intra-islet neuron-like crosstalk. The data also prove useful in identifying localized structure-specific drug-target interactions.
MOLECULAR & CELLULAR PROTEOMICS
(2022)
Review
Biochemistry & Molecular Biology
Panshak P. P. Dakup, Song Feng, Tujin Shi, Jon M. Jacobs, H. Steven Wiley, Wei-Jun Qian
Summary: Post-translational modifications (PTMs), especially phosphorylation, play a crucial role in regulating protein function. Traditional immunological assays often lack sensitivity and specificity for quantitative measurements of protein phosphorylation. Recent advances in Mass Spectrometry (MS)-based targeted proteomics, such as selected reaction monitoring (SRM) and parallel reaction monitoring (PRM), have greatly improved the accuracy and reliability of phosphoprotein quantification. This quantitative data can be used to build mathematical models of phospho-signaling pathways, providing valuable insights for better diagnosis and treatment of diseases.
Article
Physiology
Nicholas J. Day, Juan Wang, Carl J. Johnston, So -Young Kim, Heather M. Olson, Emma L. House, Isaac Kwame Attah, Geremy C. Clair, Wei -Jun Qian, Matthew D. McGraw
Summary: E-cigarette liquids consist of humectants like propylene glycol (PG) and vegetable glycerin (VG) with added nicotine or flavorings. Previous studies have focused on the toxicity of e-cigarette aerosols with flavorings, while the biological effects of humectants have received less attention. This study used mass spectrometry-based global proteomics to investigate the acute biological effects of e-cigarette aerosols on rat bronchoalveolar lavage (BAL). The results showed that exposure to PG/VG alone had a significant biological effect on the lungs, independent of nicotine or flavoring, with increased markers of extracellular trap formation.
AMERICAN JOURNAL OF PHYSIOLOGY-LUNG CELLULAR AND MOLECULAR PHYSIOLOGY
(2023)
Review
Biochemical Research Methods
Xiaolu Li, Austin Gluth, Tong Zhang, Wei-Jun Qian
Summary: Redox post-translational modifications greatly impact protein structure and function, allowing for the regulation of biological processes. Redox proteomics approaches use mass spectrometry to study these modifications and have contributed to our understanding of redox signaling and regulation. Various strategies, including blocking free thiols and using selective reduction and enrichment techniques, are employed to analyze redox PTMs. This review discusses the principles and recent advances in redox proteomics and highlights its applications in generating novel biological insights.
Article
Medicine, General & Internal
Steven E. Schutzer, Tao Liu, Chia-Feng Tsai, Vladislav A. Petyuk, Athena A. Schepmoes, Yi-Ting Wang, Karl K. Weitz, Jonas Bergquist, Richard D. Smith, Benjamin H. Natelson
Summary: This study suggests that ME/CFS and fibromyalgia may not be distinct entities based on the proteome profile of cerebrospinal fluid.
ANNALS OF MEDICINE
(2023)
Article
Cell Biology
Youngki You, Chia-Feng Tsai, Rishi Patel, Soumyadeep Sarkar, Geremy Clair, Mowei Zhou, Tao Liu, Thomas O. Metz, Chittaranjan Das, Ernesto S. Nakayasu
Summary: By using anti-acetyllysine antibodies for enrichment, we successfully analyzed carbamylated peptides and discovered their role in protein modification crosstalk. Our findings also suggest that carbamylation interacts with acetylation and phosphorylation, playing a significant regulatory role in immune signaling pathways.
CELL COMMUNICATION AND SIGNALING
(2023)
Article
Biochemistry & Molecular Biology
Sohyun Moon, Lamyaa Alsarkhi, Tai-Tu Lin, Ryota Inoue, Azeddine Tahiri, Cecilia Colson, Weikang Cai, Jun Shirakawa, Wei-Jun Qian, Jerry Yingtao Zhao, Abdelfattah El Ouaamari
Summary: This study aims to characterize the molecular repertoire and secretome profile of lower thoracic spinal sensory neurons and identify molecules with sex-biased insulin sensing and secretion-modulating activity. Transcriptomics and proteomics revealed differential gene expression and protein secretion in male and female DRG neurons. The findings suggest a potential role of sensory interoception of insulin in the DRG-islet crosstalk with implications in the regulation of beta-cell activity in a sex-biased manner.
Article
Endocrinology & Metabolism
James M. Fulcher, Adam C. Swensen, Yi-Chun Chen, C. Bruce Verchere, Vladislav A. Petyuk, Wei-Jun Qian
Summary: This study investigated the forms and quantities of improperly processed insulin and other hormone products following carboxypeptidase E (CPE) deletion in pancreatic islets using top-down proteomics. The results showed an increase in dibasic residue-containing proinsulin and other proteoforms of improperly processed proinsulin, suggesting novel substrates of CPE. Interestingly, some known substrates of CPE remained unaffected, implying compensatory mechanisms by paralogous processing enzymes. This study provides unique insights into the complexity of hormone processing products and the regulatory mechanisms.
Article
Biochemical Research Methods
Yumi Kwon, Paul D. Piehowski, Rui Zhao, Ryan L. Sontag, Ronald J. Moore, Kristin E. Burnum-Johnson, Richard D. Smith, Wei-Jun Qian, Ryan T. Kelly, Ying Zhu
Summary: Spatial proteomics holds great promise for revealing tissue heterogeneity, but current workflows require large sample amounts that may blur cell-type or microstructure-specific information. In this study, an improved sample preparation method was developed to enhance sample recovery and enable more precise protein analysis by integration with established techniques.