Article
Microbiology
Ine Storaker Myrbraten, Gro Anita Stamsas, Helena Chan, Danae Morales Angeles, Tiril Mathiesen Knutsen, Zhian Salehian, Volha Shapaval, Daniel Straume, Morten Kjos
Summary: Cell division and cell wall synthesis in Staphylococcus aureus are complex processes that require the coordination of multiple proteins. In this study, a protein called SmdA was found to play a critical role in cell division. Proper levels of SmdA were necessary for septum formation and cell splitting. SmdA also interacted with other proteins involved in cell division and cell wall synthesis, and affected susceptibility to cell wall targeting antibiotics.
Article
Microbiology
Huijie Wu, Mei Liu, Baoshan Kang, Liming Liu, Ni Hong, Bin Peng, Qinsheng Gu
Summary: In this study, researchers found that the AC5 protein of Squash leaf curl China virus (SLCCNV) can suppress single-stranded RNA, affecting gene silencing. Through analysis, they determined that the C-terminal domain of the AC5 protein is responsible for its RNA silencing suppression activity, and the nuclear localization signal (NLS) is crucial for this function.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Veterinary Sciences
Wanting Yu, Yuao Sun, Qing He, Chaoying Sun, Tian Dong, Luhua Zhang, Yang Zhan, Naidong Wang, Yi Yang, Yujie Sun
Summary: The mitochondrial localization signal (MLS) in the PCV2 Cap is critical for Cap-induced apoptosis and essential for PCV2 replication, as deletion of the MLS is lethal for virus rescue.
VETERINARY SCIENCES
(2021)
Article
Cell & Tissue Engineering
Saeko Akiyama, Noriaki Saku, Shoko Miyata, Kenta Ite, Masashi Toyoda, Tohru Kimura, Masahiko Kuroda, Atsuko Nakazawa, Mureo Kasahara, Hidenori Nonaka, Akihide Kamiya, Tohru Kiyono, Tohru Kobayshi, Yasufumi Murakami, Akihiro Umezawa
Summary: The study established a simple in vitro culture system which enables efficient proliferation of hepatocytes through the use of cytocidal antibiotics. This provides a stable supply of hepatocytes for drug discovery research at a significant cost reduction.
STEM CELL RESEARCH & THERAPY
(2022)
Article
Plant Sciences
Xiaoguang Shang, Lijie Zhu, Yujia Duan, Qingfei He, Meiyue Zhao, Yujia Yu, Wangzhen Guo
Summary: In this study, an easy and rapid Agrobacterium-mediated method for transient transformation of genes and promoters in cotton fibers is developed. Exogenous genes were expressed in cotton fibers, and parameters affecting transformation efficiency were determined. Additionally, four different cotton genes specifically expressed in fibers were transiently transformed and resulted in increased gene transcripts. The method is proven suitable for promoter characterization and protein expression in cotton fibers.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Biochemical Research Methods
Taner Arslan, Yanbo Pan, Georgios Mermelekas, Mattias Vesterlund, Lukas M. Orre, Janne Lehtio
Summary: The subcellular localization of a protein is crucial for understanding its functions. In this study, a mass spectrometry- and bioinformatics-based pipeline was developed to generate a comprehensive resource for protein subcellular localization in multiple human cancer cell lines. The protocol includes a detailed wet-lab procedure, quantitative MS-data analysis, machine learning-based classification, and visualization of the output. The pipeline was evaluated using different peptide pre-fractionation approaches and proved to be straightforward and robust, with the entire process being completed within 1-2 weeks.
Article
Plant Sciences
Sha Wang, Xinhui Zhang, Bianbian Li, Xueqing Zhao, Yu Shen, Zhaohe Yuan
Summary: In this study, 65 bZIP genes were identified and analyzed in pomegranate. The expression patterns of these genes varied in different developmental stages and tissues of pomegranate, and two candidate genes related to anthocyanin accumulation were identified. Functional experiments showed that these genes promoted anthocyanin accumulation in tobacco and Arabidopsis.
Article
Agronomy
Jinxian Liu, Chang Zhang, Weihua Su, Guangheng Wu, Xianyu Fu, Youxiong Que, Jun Luo
Summary: The study identified the important role of the ScCaM gene in plant growth and development, as well as responses to external stresses, by inhibiting the expression of the AtSTM gene which leads to the phenomenon of multiple-tillering in transgenic Arabidopsis thaliana.
Article
Plant Sciences
Boyang Zhang, Li Chang, Weinan Sun, Abid Ullah, Xiyan Yang
Summary: Expansins, particularly GhEXLB2, play a crucial role in enhancing drought resistance in cotton by regulating the expression of certain proteins under abiotic stress, resulting in improvements in various physiological and biochemical parameters such as root length, antioxidant enzyme activity, and water use efficiency.
PLANT PHYSIOLOGY AND BIOCHEMISTRY
(2021)
Article
Biotechnology & Applied Microbiology
Hui Huang, Yali Niu, Qi Jin, Kunhai Qin, Li Wang, Yitong Shang, Bin Zeng, Zhihong Hu
Summary: Thiolases play important roles in lipid metabolism. This study identified six thiolases in the Aspergillus oryzae genome and investigated their expression patterns, subcellular localization, and effects on growth and lipid biosynthesis. The results provide insights into the function of thiolases and lay the foundation for genetic engineering of lipid metabolism in A. oryzae or other fungi.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Tianyu Cui, Yiying Dou, Puwen Tan, Zhen Ni, Tianyuan Liu, DuoLin Wang, Yan Huang, Kaican Cai, Xiaoyang Zhao, Dong Xu, Hao Lin, Dong Wang
Summary: RNALocate v2.0 is a comprehensive RNA subcellular localization resource that includes expanded data sources and species coverage, integration of RNA-seq datasets, addition and reorganization of RNA information, and three new prediction tools, providing researchers with tools to understand the complex architecture of the cell.
NUCLEIC ACIDS RESEARCH
(2022)
Article
Genetics & Heredity
Jiancheng Sun, Feng Qin, Fuzhen Sun, Ping He, Erjun Wei, Runpeng Wang, Feng Zhu, Qiang Wang, Xudong Tang, Yiling Zhang, Zhongyuan Shen
Summary: In this study, the NbSec61 alpha and NbSec61 gamma genes were identified in the microsporidian Nosema bombycis for the first time. These genes were found to play important roles in the transport across the endoplasmic reticulum and intracellular development of N. bombycis.
Article
Plant Sciences
Xi Zhu, Lan Jiang, Yongping Cai, Yunpeng Cao
Summary: In this study, five PRXs were cloned from Chinese pear and found to play critical roles in lignin biosynthesis. The enzyme activity and subcellular localization of these PRXs varied, with PbPRX2 shown to be important for polymerization of lignin in pear fruit. The results suggest that PbPRXs are key in lignin biosynthesis in Chinese pear fruit.
PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS
(2021)
Article
Mathematical & Computational Biology
Yongyin Han, Maolin Liu, Zhixiao Wang
Summary: This paper presents a novel method for key protein identification that integrates protein complex information with multiple biological features. The proposed method achieves higher accuracy in identifying key proteins compared to classical methods and exhibits robustness across diverse protein-protein interaction networks.
MATHEMATICAL BIOSCIENCES AND ENGINEERING
(2023)
Article
Genetics & Heredity
Mingyang Liu, Lifeng Wang, Yuhang Ke, Xuemei Xian, Jiali Wang, Meng Wang, Yu Zhang
Summary: Heat shock protein 90 (HSP90) is an essential molecular chaperone in plants that responds to stress. In this study, 7 HbHSP90 genes were identified from the rubber tree genome, and classified into three groups. The HbHSP90 genes showed differential expression under temperature, drought, and powdery mildew infection, with HbHSP90.1 being significantly expressed under both abiotic and biotic stresses. Furthermore, HbHSP90.1 interacted with HbSGT1b and both were located in the nucleus. These findings provide a solid foundation for further understanding the role of HbHSP90 family genes in stress resistance response in rubber trees.
Article
Biochemistry & Molecular Biology
Diego Sbrissa, Louie Semaan, Barani Govindarajan, Yanfeng Li, Nicholas J. Caruthers, Paul M. Stemmer, Michael L. Cher, Seema Sethi, Ulka Vaishampayan, Assia Shisheva, Sreenivasa R. Chinni
Article
Biochemical Research Methods
Zhijing Tan, Xinpei Yi, Nicholas J. Carruthers, Paul M. Stemmer, David M. Lubman
JOURNAL OF PROTEOME RESEARCH
(2019)
Article
Materials Science, Biomaterials
Akshata R. Naik, Sebastian Pernal, Kenneth T. Lewis, Yaobin Wu, Hongkai Wu, Nicholas J. Carruthers, Paul M. Stemmer, Bhanu P. Jena
ACS BIOMATERIALS SCIENCE & ENGINEERING
(2019)
Article
Pathology
Qiuyan Xia, Yan Zhou, Hongmei Yong, Xudong Wang, Wei Zhao, Guipeng Ding, Jin Zhu, Xiaohua Li, Zhenqing Feng, Bing Wang
PATHOLOGY RESEARCH AND PRACTICE
(2019)
Review
Oncology
Qian Zhang, Chitra Thakur, Junwei Shi, Jiaying Sun, Yao Fu, Paul Stemmer, Fei Chen
SEMINARS IN CANCER BIOLOGY
(2019)
Article
Biochemical Research Methods
Zhijing Tan, Jianhui Zhu, Paul M. Stemmer, Liangliang Sun, Zhichang Yang, Kendall Schultz, Matthew J. Gaffrey, Anthony J. Cesnik, Xinpei Yi, Xiaohu Hao, Michael R. Shortreed, Tujin Shi, David M. Lubman
JOURNAL OF PROTEOME RESEARCH
(2020)
Article
Multidisciplinary Sciences
Bengt B. Arnetz, Sukhesh Sudan, Judith E. Arnetz, Jolin B. Yamin, Mark A. Lumley, John S. Beck, Paul M. Stemmer, Paul Burghardt, Scott E. Counts, Hikmet Jamil
Article
Cell Biology
Sijie Tang, Xueqi Lian, Jiajia Jiang, Huiying Cheng, Jiaqian Guo, Can Huang, Hong Meng, Xiaohua Li
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2020)
Article
Biology
Anna Lokshin, Lyudmila M. Mikhaleva, Eugene Goufman, Marina N. Boltovskaya, Natalia B. Tikhonova, Irina I. Stepanova, Alexandr A. Stepanov, Natalia Potoldykova, Andrey Z. Vinarov, Paul Stemmer, Vasily Iakovlev
Summary: The study found that digested immunoglobulins in prostate cancer patients bind differently to plasminogen compared to patients with benign prostate hyperplasia and healthy controls, serving as a potential biomarker for prostate cancer detection. The diagnostic accuracy of circulating IgG-Lys levels in distinguishing between prostate cancer and benign prostatic hyperplasia is significantly higher than that of total PSA.
Article
Immunology
Sijie Tang, Xueqi Lian, Huiying Cheng, Jiaqian Guo, Daguang Ni, Can Huang, Xiang Gu, Hong Meng, Jiajia Jiang, Xiaohua Li
Summary: The study showed that bacterial lipopolysaccharide (LPS) can enhance malignant transformation in prostate cancer (PCa) epithelial cells, while Trichostatin A (TSA) can partially prevent LPS-induced malignant transformation by targeting the p-Stat3/c-Myc signaling pathway and reducing the expression of inflammatory cytokines IL-6 and IL-8. The assay of LPS-induced tumorosphere formation could serve as a simple and easy method for drug screening targeting cancer stem cells in vitro for clinical practice.
JOURNAL OF INFLAMMATION RESEARCH
(2021)
Article
Environmental Sciences
Zhao Yang, Paul M. Stemmer, Michael C. Petriello
Summary: This study identified a protein:protein interaction network for the hepatic xenobiotic metabolizing enzyme FMO3 and validated its association with genes involved in the urea cycle. Deficiency of FMO3 led to overexpression of the rate-limiting gene of the urea cycle, CPS1, and increased hepatic urea levels. These findings suggest a role for FMO3 in chronic kidney disease independent of TMAO formation.
Review
Oncology
Sijie Tang, Zhongli Ling, Jiajia Jiang, Xiang Gu, Yuzhong Leng, Chaohui Wei, Huiying Cheng, Xiaohua Li
Summary: In this review, the authors summarize the role of Maspin in tumorous development and its interaction with p53. They elucidate the underlying antitumor mechanism and propose that the activation of the Maspin-p53 self-propelling mechanism can effectively reduce cellular stress and prevent cancer.
FRONTIERS IN ONCOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Jordan B. Burton, Nicholas J. Carruthers, Zhanjun Hou, Larry H. Matherly, Paul M. Stemmer
Summary: Localization of organelle proteins by isotope tagging (LOPIT) is a method that represents proteome data in a coordinate-directed manner, aiding in biological interpretation. LOPIT maps help evaluate and interpret protein organellar association in different proteomic data sets.
Article
Oncology
Huiying Cheng, Sijie Tang, Xueqi Lian, Hong Meng, Xiang Gu, Jiajia Jiang, Xiaohua Li
Summary: DNA methylation, mediated by DNA methyltransferase, affects gene expression and plays a role in malignant diseases. The classic inhibitor 5-Aza inhibits tumor cell proliferation and induces cell cycle arrest. It increases tumor suppressive proteins and transcription factors, while decreasing oncogene expression. These results suggest potential clinical applications in prostate cancer treatment.
Meeting Abstract
Oncology
Jiajia Jiang, Xueqi Lian, Sijie Tang, Xiaohua Li