Article
Microbiology
Wenlin Ren, Yunkai Zhu, Yuyan Wang, Hongyang Shi, Yin Yu, Gaowei Hu, Fei Feng, Xiaomin Zhao, Jun Lan, Jianping Wu, Devin J. Kenney, Florian Douam, Yimin Tong, Jin Zhong, Youhua Xie, Xinquan Wang, Zhenghong Yuan, Dongming Zhou, Rong Zhang, Qiang Ding
Summary: SARS-CoV-2 utilizes ACE2 as the receptor for species-specific cell entry. By humanizing the restrictive residues, koala and mouse ACE2 proteins can gain the ability to bind with the viral spike protein. This study sheds light on the genetic determinants of ACE2 as the functional receptor of SARS-CoV-2.
Article
Multidisciplinary Sciences
Bo Qin, Ziheng Li, Kaiming Tang, Tongyun Wang, Yubin Xie, Sylvain Aumonier, Meitian Wang, Shuofeng Yuan, Sheng Cui
Summary: This study reveals that SARS-CoV-2 SUD has druggable sites for antiviral development and identifies theaflavin 3,3'-digallate as a potent SUD binder with anti-SARS-CoV-2 activity.
NATURE COMMUNICATIONS
(2023)
Article
Multidisciplinary Sciences
Jingru Fang, Colette Pietzsch, Haydar Witwit, George Tsaprailis, Gogce Crynen, Kelvin Frank Cho, Alice Y. Ting, Alexander Bukreyev, Erica Ollmann Saphire, Juan Carlos de la Torre
Summary: In this study, proximity proteomics was used to define the interactome of Lassa virus polymerase, leading to the identification of proteins involved in the virus replication and transcription. Eukaryotic peptide chain release factor subunit 3a was characterized as a proviral factor that physically associates with Lassa virus polymerase. Targeted degradation of this factor resulted in strong inhibition of Lassa virus infection, suggesting it as a potential target for antiviral development.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Microbiology
Xueyan Zhang, Haojie Hao, Li Ma, Yecheng Zhang, Xiao Hu, Zhen Chen, Di Liu, Jianhui Yuan, Zhangli Hu, Wuxiang Guan
Summary: Our study demonstrated that SARS-CoV-2 RNA undergoes m(6)A modification by host m(6)A machinery, altering the expression patterns of methyltransferases and demethylases. METTL3 and FTO levels were linked to viral replication, with METTL3 interacting with viral RdRp to influence both distribution and posttranslational modification. Host m(6)A components interacted with viral proteins to modulate viral replication.
Article
Immunology
Li Wang, Xiaoyu Fan, Gaston Bonenfant, Dan Cui, Jaber Hossain, Nannan Jiang, Gloria Larson, Michael Currier, Jimma Liddell, Malania Wilson, Azaibi Tamin, Jennifer Harcourt, Jessica Ciomperlik-Patton, Hong Pang, Naomi Dybdahl-Sissoko, Ray Campagnoli, Pei-Yong Shi, John Barnes, Natalie J. Thornburg, David E. Wentworth, Bin Zhou
Summary: While some kidney cell lines from monkeys are susceptible to SARS-CoV-2, cell types from humans, dogs, minks, cats, mice, and chickens are not. MDCK cells commonly used for influenza virus surveillance are also not susceptible. Strengthening the cellular barrier to infection can prevent inadvertent propagation of the virus.
EMERGING INFECTIOUS DISEASES
(2021)
Article
Pharmacology & Pharmacy
Xiao Chen, Yutong Wang, Jing Tian, Yurou Shao, Bo Zhu, Jigang Wang, Zichun Hua
Summary: Resveratrol inhibits A549 cell migration by binding to multiple target proteins to regulate cytoskeletal remodeling and suppress epithelial mesenchymal transition (EMT).
FRONTIERS IN PHARMACOLOGY
(2021)
Article
Andrology
Shibo Zhu, Wen Fu, Jinhua Hu, Xiangliang Tang, Yanhong Cui, Wei Jia
Summary: This study explored the differentially expressed proteins in severe hypospadias tissues using proteomics analysis, indicating the potential involvement of inflammatory activity in the pathology of this condition. The findings suggest non-surgical approaches as promising therapeutic strategies.
TRANSLATIONAL ANDROLOGY AND UROLOGY
(2022)
Article
Public, Environmental & Occupational Health
Xu Yuyun, Yu Lexi, Wang Haochu, Shu Zhenyu, Gong Xiangyang
Summary: The study found differences in lung involvement between ordinary and severe/critical COVID-19 patients at different time points. Quantitative analysis based on chest CT images can provide early warning information for potentially severe/critical patients.
FRONTIERS IN PUBLIC HEALTH
(2021)
Article
Cell Biology
Caroline G. Williams, Alexander S. Jureka, Jesus A. Silvas, Anthony M. Nicolini, Stacie A. Chvatal, Jared Carlson-Stevermer, Jennifer Oki, Kevin Holden, Christopher F. Basler
Summary: This study reveals that compounds targeting VPS34 and fatty acid metabolism are potent inhibitors of SARS-CoV-2, with triacylglycerol production and protein palmitoylation identified as crucial for viral RNA synthesis and infectious virus production. FASN knockout results in impaired SARS-CoV-2 replication, which can be rescued by fatty acid supplementation, pointing towards promising avenues for countermeasures against SARS-CoV-2.
Article
Chemistry, Medicinal
Daniel Korn, Vera Pervitsky, Tesia Bobrowski, Vinicius M. Alves, Charles Schmitt, Chris Bizon, Nancy Baker, Rada Chirkova, Artem Cherkasov, Eugene Muratov, Alexander Tropsha
Summary: The COVID-19 pandemic has accelerated research on drug candidates and biological targets for SARS-COV-2 infection, leading to the development of COKE, a web application that extracts essential drug-target relationships from COVID-19 literature. Utilizing ontological tagging and lookup routines, COKE identified a large number of drug-protein pairs and has the potential to aid in drug repurposing efforts against SARS-CoV-2.
JOURNAL OF CHEMICAL INFORMATION AND MODELING
(2021)
Article
Biochemistry & Molecular Biology
Ping Liu, Xiaoji Cong, Shengjie Liao, Xinglong Jia, Xiaomin Wang, Wei Dai, Linhui Zhai, Lei Zhao, Jing Ji, Duan Ni, Zhiwei Liu, Yulu Chen, Lulu Pan, Wei Liu, Jian Zhang, Min Huang, Bin Liu, Minjia Tan
Summary: This study identified phosphorylation-dependent SCF substrates using a quantitative phosphoproteome approach, demonstrating the mechanism by which SCFFBXO22 recognizes a phosphodegron. FBXO22 was shown to mediate BAG3 ubiquitination and degradation, impacting tumor growth, apoptosis, and cell cycle progression.
CELL DEATH AND DIFFERENTIATION
(2022)
Article
Multidisciplinary Sciences
Aziza Kantri, Jihane Ziati, Mohamed Khalis, Amal Haoudar, Karim El Aidaoui, Youssef Daoudi, Inas Chikhaoui, Khalid El Yamani, Mohammed Mouhaoui, Jalila El Bakkouri, Nezha Dini, Mohammed Mahi, Abdelhamid Naitlho, Abdelkrim Bahlaoui, Ahmed Bennana, Mustapha Noussair, Lahcen Belyamani, Chafik El Kettani
Summary: This study critically analyzed the clinical and biological characteristics of 134 patients from the North African Mediterranean region with COVID-19, finding that factors such as age, comorbidities, gender, and infection type were associated with disease progression to a severe state. Abnormalities in certain parameters were closely linked to disease deterioration.
Article
Biochemistry & Molecular Biology
Tzu-Ting Kuo, Li-Chun Lin, Hsin-Yi Chang, Pei-Jung Chiang, Hsin-Yi Wu, Tai-Yuan Chen, Shih-Min Hsia, Tsui-Chin Huang
Summary: Hot water extract of Melissa officinalis exhibits anticancer effects in colon cancer cells by modulating mitochondrial respiratory electron transport and oxidative stress response.
Article
Multidisciplinary Sciences
Fritz Obermeyer, Martin Jankowiak, Nikolaos Barkas, Stephen F. Schaffner, Jesse D. Pyle, Leonid Yurkovetskiy, Matteo Bosso, Daniel J. Park, Mehrtash Babadi, Bronwyn L. MacInnis, Jeremy Luban, Pardis C. Sabeti, Jacob E. Lemieux
Summary: This study developed a model called PyR0 for rapid detection and characterization of new SARS-CoV-2 lineages, and identified mutations relevant to fitness. By applying PyR0 to all publicly available SARS-CoV-2 genomes, the researchers discovered mutations that increase fitness and predicted the growth of new lineages based on their mutational profile. The model also prioritizes mutations of biological and public health concern for further study.
Article
Cell Biology
Tian-Yi Zhu, Shang-Tong Li, Dan-Dan Liu, Xiajun Zhang, Lianqi Zhou, Rong Zhou, Bing Yang
Summary: This study quantifies protein changes during aging in different individuals using single-worm mass spectrometry, and reveals the heterogeneity of aging by reconstructing the aging trajectory and proteomic landscape of C. elegans.
Article
Biochemistry & Molecular Biology
Binbin Tao, Hongling Hu, Ji Chen, Lu Chen, Daji Luo, Yonghua Sun, Feng Ge, Zuoyan Zhu, Vance L. Trudeau, Wei Hu
Summary: Recent research has identified a new subunit of the SIN3A-HDAC complex, called Sinhcaf, that plays a crucial role in germ plasm aggregation and primordial germ cell (PGC) specification. Sinhcaf-dependent histone deacetylation is essential for proper PGC development, as mutations in sinhcaf result in defects in germ plasm aggregation and decreased PGC abundance. Sinhcaf achieves this by regulating the acetylation status of the kif26ab promoter, which affects its transcription and ultimately PGC specification.
Article
Biochemical Research Methods
Bing Wang, Min Wang, Shuzhao Jia, Tao Li, Mingkun Yang, Feng Ge
Summary: This study reveals the role of BANCR in cervical cancer, showing that it promotes cell proliferation and inhibits apoptosis in HeLa cells. Through gene knockout and proteomic analysis, BANCR was found to regulate the expression of 569 proteins in HeLa cells. Further investigation suggests that BANCR exerts its effects by inhibiting miR-582-5p expression and subsequently regulating CREB1 expression.
JOURNAL OF PROTEOME RESEARCH
(2022)
Article
Biochemistry & Molecular Biology
Junhua Huang, Wenjing Dai, Duncheng Xiao, Qian Xiong, Cuifang Liu, Jie Hu, Feng Ge, Xilan Yu, Shanshan Li
Summary: The S. cerevisiae SAGA complex undergoes acetylation-dependent dimerization in response to environmental changes, allowing for cooperative acetylation of nucleosomes, facilitation of gene transcription, and increased cell survival under stress conditions.
NATURE STRUCTURAL & MOLECULAR BIOLOGY
(2022)
Article
Multidisciplinary Sciences
Qi Yu, Xuanyunjing Gong, Yue Tong, Min Wang, Kai Duan, Xinyu Zhang, Feng Ge, Xilan Yu, Shanshan Li
Summary: In this study, the researchers found that glycolysis regulates histone modifications and gene expression by activating protein kinase A (PKA) pathway. The catalytic subunit of PKA, Tpk2, phosphorylates Jhd2 to affect its localization and function on chromatin, thereby regulating gene expression, lifespan, and autophagy.
NATURE COMMUNICATIONS
(2022)
Article
Plant Sciences
Yumeng Zhang, Yaqi Wang, Wei Wei, Min Wang, Shuzhao Jia, Mingkun Yang, Feng Ge
Summary: Protein homeostasis in cyanobacteria is regulated by a proteolytic complex called ClpXP, which consists of ATPase ClpX and peptidase ClpP. This study aimed to investigate the functions and regulatory networks of ClpX in Synechocystis by identifying 172 differentially expressed proteins upon clpX interruption. The results provide a comprehensive ClpX-regulated protein network and new candidates for future functional studies on ClpX in cyanobacteria.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Biochemical Research Methods
Yu Wang, Mingkun Yang, Feng Ge, Bin Jiang, Rui Hu, Xin Zhou, Yunhuang Yang, Maili Liu
Summary: This study explored the role of lysine succinylation (Ksuc) in regulating aflatoxin (AF) biosynthesis in naturally isolated Aspergillus flavus strains with high/low AF production. The results revealed that Ksuc plays an important role in regulating AF biosynthesis, affecting sclerotia development and AF synthesis in A. flavus strains.
MOLECULAR & CELLULAR PROTEOMICS
(2023)
Article
Multidisciplinary Sciences
Fei He, Qi Yu, Min Wang, Rongsha Wang, Xuanyunjing Gong, Feng Ge, Xilan Yu, Shanshan Li
Summary: This study reveals the inhibitory effect of H3pT11 on H3K79me3 and uncovers the histone crosstalk regulating autophagy and telomere silencing. It is also discovered that Reb1 recruits the SESAME complex to telomere regions to prevent the invasion of H3K79me3 into heterochromatin, maintaining telomere silencing.
NATURE COMMUNICATIONS
(2022)
Article
Biochemistry & Molecular Biology
Qihang Peng, Jin Li, Qian Wu, Pei Wang, Zhongcui Kang, Yiting Deng, Yu Xiao, Peng Zheng, Feng Ge, Ying Chen
Summary: Hepatocellular carcinoma (HCC) is a deadly disease with limited diagnostic and therapeutic options. This study explored the expression and potential functions of ZNF385A and ZNF346 in HCC. The results showed that ZNF385A and ZNF346 were overexpressed in HCC and correlated with poor prognosis. They were also associated with immune infiltration and decreased response to immunotherapy. Knockdown of ZNF385A and ZNF346 inhibited HCC cell proliferation and migration. These findings suggest that ZNF385A and ZNF346 could be valuable biomarkers for HCC diagnosis, prognosis, and immunotherapy response.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Multidisciplinary Sciences
Yinsheng Wu, Lixu Tang, Han Huang, Qi Yu, Bicheng Hu, Gang Wang, Feng Ge, Tailang Yin, Shanshan Li, Xilan Yu
Summary: This study reveals that glycolysis-derived serine biosynthesis activates PKM2 to prevent cell senescence and promote healthy aging. The expression of serine biosynthetic enzyme PHGDH is reduced during senescence, leading to a decrease in intracellular serine. PHGDH prevents premature senescence primarily by enhancing the stability and activity of PKM2 and regulating the transcription of senescence-associated genes.
NATURE COMMUNICATIONS
(2023)
Article
Genetics & Heredity
Qian Wu, Jin Li, Pei Wang, Qihang Peng, Zhongcui Kang, Yiting Deng, Jiayi Li, Dehong Yan, Feng Ge, Ying Chen
Summary: As an important member of the kindlin family, FERMT1 is significantly up-regulated in pancreatic carcinoma (PAAD) and correlated with T stage and histologic grade. High FERMT1 expression is closely connected with poor prognosis and can be used to diagnose PAAD. Furthermore, FERMT1 expression is significantly related to N6-methyladenosine (m(6)A) modification and is associated with immune cell infiltration and the modulation of m(6)A and necroptosis. FERMT1 can serve as a diagnostic and prognostic marker of PAAD.
Article
Multidisciplinary Sciences
Xin Li, Qianyun Mei, Qi Yu, Min Wang, Fei He, Duncheng Xiao, Huan Liu, Feng Ge, Xilan Yu, Shanshan Li
Summary: Autophagy is a critical process for maintaining homeostasis, differentiation, and development. This study identifies Ino80 and H2A.Z as targets for the histone deacetylase Rpd3L complex, elucidating their role in regulating autophagy in response to changes in nutrient availability. The study shows that Rpd3L deacetylates Ino80 and H2A.Z, which protects Ino80 from degradation and represses the transcription of autophagy-related genes. The activity of Rpd3L is enhanced by the TORC1 complex, and its inactivation induces autophagy. This research provides insights into the role of chromatin remodelers and histone variants in modulating autophagy.
Article
Virology
Can Zhang, Long-Feng Lu, Zhuo-Cong Li, Ke-Jia Han, Xue-Li Wang, Dan-Dan Chen, Feng Xiong, Xi-Yin Li, Li Zhou, Feng Ge, Shun Li
Summary: Zebrafish MAP2K7 plays a crucial positive role in the host antiviral process, as it stabilizes host IRF7 and degrades SVCV P protein to protect the host during viral infection.
JOURNAL OF VIROLOGY
(2023)
Article
Plant Sciences
Kun Jia, Mingkun Yang, Xin Liu, Qi Zhang, Gaoxiang Cao, Feng Ge, Jindong Zhao
Summary: This study identified a KAT in cyanobacteria, named cGNAT2, and revealed that cGNAT2 regulates the growth and photosynthesis of cyanobacteria through an acetylation-mediated mechanism.
Article
Microbiology
Zhuo Zhu, Mingkun Yang, Guang Yang, Bei Zhang, Xiaohong Cao, Jun Yuan, Feng Ge, Shihua Wang
Summary: This study identified seven members of the PP2C family of protein phosphatases in A. flavus and revealed the crucial roles of Ptc1 and Ptc2 in conidia development, aflatoxin synthesis, seed infection, and autophagic vesicle formation. The study also highlighted the importance of the Asp residue coordinated with Mg2+ in Ptc1 and Ptc2 activity, thermal stability, and biofunction. Additionally, the interaction between Ptc1/Ptc2 and PGK1 was found to be associated with phosphorylation levels and the regulation of aflatoxin synthesis and autophagic vesicle formation.
Article
Biochemistry & Molecular Biology
Qian Wu, Pei Wang, Qihang Peng, Zhongcui Kang, Yiting Deng, Jiayi Li, Ying Chen, Jin Li, Feng Ge
Summary: The study found that ADGRG2 is highly expressed in hepatocellular carcinoma (HCC) and is associated with poor survival. ADGRG2 may be involved in cancer pathways and immune-related pathways. In vitro experiments demonstrated that inhibiting ADGRG2 can suppress the proliferation and migration of liver cancer cells. ADGRG2 is highly correlated with neutrophils and is associated with inflammatory cytokines and immunotherapy efficacy.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)