Article
Chemistry, Multidisciplinary
Yuanjiao Yang, Yunlong Chen, Shiya Zhao, Huipu Liu, Jingxing Guo, Huangxian Ju
Summary: This study developed a quantitative SERS imaging strategy for mapping the O-GlcNAcylation distribution of single living cells. O-GlcNAcylated compounds (OGCs) were quantified through in situ azide labeling and a click reaction, allowing for convenient detection of OGCs in different areas of single living cells using a calibration curve obtained in vitro. This method demonstrated its practicality and expansibility in glycosylation related analysis through successfully mapping O-GlcNAcylation distribution in different cell lines and monitoring O-GlcNAcylation variation during the cell cycle.
Article
Chemistry, Multidisciplinary
Yujie Liu, Hongding Zhang, Binxiao Li, Jianwei Liu, Dechen Jiang, Baohong Liu, Neso Sojic
Summary: This study successfully imaged single biomolecules using RuDSNs/AuNPs as ECL nanoemitters, demonstrating the visualization of single protein molecules and single membrane proteins in cells, overcoming the challenges in ultrasensitive ECL analysis and providing valuable information for cellular biology research.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2021)
Article
Chemistry, Multidisciplinary
Ke Cheng, Henggang Wang, Shan Sun, Mingyu Wu, Hongzhe Shen, Ke Chen, Zhiyuan Zhang, Si Li, Hengwei Lin
Summary: This study develops a strategy for specific chemiluminescence (CL) imaging and enhanced photodynamic therapy (PDT) of bacterial infections using hemin-modified carbon dots (H-CDs). The H-CDs exhibit favorable water solubility, augmented photodynamic activity, and unique peroxidase-mimicking capacity. The H-CDs not only enable infection identification via CL imaging but also enhance bactericidal effects through oxygen self-supply and relief of hypoxia. This work provides an effective antibacterial platform for selective imaging-guided treatment of bacterial infections.
Article
Biotechnology & Applied Microbiology
Chunlei Jiao, Claas Reckstadt, Fabian Koenig, Christina Homberger, Jiaqi Yu, Joerg Vogel, Alexander J. Westermann, Cynthia M. Sharma, Chase L. Beisel
Summary: We developed a method called TIGER (transcribed RNAs inferred by genetically encoded records) to capture the transcriptional history of individual bacterial cells. This method utilizes reprogrammed tracrRNAs (Rptrs) to convert selected cellular transcripts into stored DNA edits, allowing for future sequencing and analysis. TIGER can record and quantify heterologous and endogenous transcripts, distinguish single-nucleotide differences, and read out single-cell phenomena, providing insights into complex cellular responses.
NATURE BIOTECHNOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Raphael Forquet, William Nasser, Sylvie Reverchon, Sam Meyer
Summary: DNA supercoiling acts as a global transcriptional regulator in bacteria. A thermodynamic model based on DNA elasticity is developed to predict the relative activation of promoters with different spacer lengths. The model is validated through in vitro and in vivo expression assays and genome-scale analysis in Escherichia coli, demonstrating the significant effect of spacer length on genomic expression after superhelical variations.
NUCLEIC ACIDS RESEARCH
(2022)
Review
Chemistry, Multidisciplinary
Marco Bertolini, Man Sing Wong, Lorena Mendive-Tapia, Marc Vendrell
Summary: T cells play crucial roles in adaptive response and tissue homeostasis in the immune system. Smart probes, including small molecule fluorophores and nanoconstructs, have been developed to image T cells in tumors and inflammation sites by targeting metabolic and enzymatic biomarkers as well as specific surface receptors. This review summarizes recent advancements in the design, synthesis, and application of smart probes for imaging T cells, and discusses their use in monitoring T cell response to anti-cancer immunotherapies.
CHEMICAL SOCIETY REVIEWS
(2023)
Article
Biochemical Research Methods
Yuan You, Zhihao Jiang
Summary: This protocol describes a novel technique called eINTACT for isolating biotin-labeled nuclei from Arabidopsis plant cells that have received Xanthomonas bacterial effectors. By using streptavidin-coated magnetic beads, this method allows the isolation of high-quality nuclei from bacterial effector-targeted host cells in native infection contexts.
Article
Multidisciplinary Sciences
Tae-Hwan Jung, Kyoung-Sik Han, Jeong-Hyeon Park, Hyo-Jeong Hwang
Summary: Short-chain fatty acids, especially butyrate, regulate the functional integrity of the gastrointestinal tract by stimulating mucin secretion and preventing bacterial infections. Butyrate treatment increases the adherence of beneficial bacteria and inhibits Escherichia coli adhesion. The involvement of the mitogen-activated protein kinase signaling pathway suggests a potential mechanism for stimulating mucin secretion.
Article
Biochemical Research Methods
Tin Yau Pang, Martin Lercher
Summary: A considerable amount of bacterial cytosol is filled with catalysts and their substrates. The optimal cytosolic volume occupancy depends on the allocation of resources and the balance between metabolic enzymes and ribosomes. The variation in cytosolic density in bacterial cells follows an optimality principle of cellular efficiency.
PLOS COMPUTATIONAL BIOLOGY
(2023)
Editorial Material
Biochemical Research Methods
Xiaowei Zhuang
Summary: The recent development of genome-scale imaging allows for single-cell omics analysis in intact cells and tissues, enabling gene expression profiling, identification of cell types, and spatial mapping in complex tissues. The high spatial resolution of these approaches also allows for determining the spatial organizations of the genome and transcriptome inside cells, which are key regulatory mechanisms for gene expression.
Article
Multidisciplinary Sciences
Tatyana E. Saleski, Meng Ting Chung, David N. Carruthers, Azzaya Khasbaatar, Katsuo Kurabayashi, Xiaoxia Nina Lin
Summary: The method presented in the study achieved tuning of pathway gene expression levels through random integration and high-throughput screening, leading to high productivity and yield of isobutanol in Escherichia coli. Examination of pathway expression in top-performing isolates highlighted the complexity of cellular metabolism and regulation, emphasizing the importance of precise optimization during integration of pathway genes into the chromosome.
Article
Medical Laboratory Technology
Melissa C. Remmel, Sabrina M. Coyle, Mark W. Eshoo, Timothy E. Sweeney, David C. Rawling
Summary: This study developed a rapid test system based on qRT-LAMP for profiling host gene expression from blood, which can accurately discriminate between bacterial and viral infections. The system has a short turnaround time of 12 minutes.
CLINICAL CHEMISTRY
(2022)
Article
Chemistry, Multidisciplinary
Tao Sun, Qinjun Chen, Zheng Zhou, Chao Li, Teng Yu, Chen Jiang
Summary: In this study, a targeting peptide-conjugated chemiluminescent reporter (OFF) was developed to detect and visualize inflammatory diseases. The reporter was recognized by neutrophils and transported to inflamed tissues characterized by overexpressed superoxide anion (O2·-). The chemiluminescent probe specifically responded to O2·- and released photons (ON) for early detection and precise excision of micrometastatic lesions.
JOURNAL OF CONTROLLED RELEASE
(2023)
Article
Plant Sciences
Qiang Li, Xiujuan Qin, Miao Zhang, Qiyuan Yu, Ruirui Jia, Jie Fan, Xin Huang, Jia Fu, Chenxi Zhang, Baohang Xian, Wen Yang, Qin Long, Aihong Peng, Lixiao Yao, Shanchun Chen, Yongrui He
Summary: This study reveals the positive impact of CsBZIP40 on citrus bacterial canker (CBC) resistance and reactive oxygen species (ROS) homeostasis. CsBZIP40 regulates CBC resistance by suppressing the transcriptional activity of CsWRKY43 and negatively regulates ROS homeostasis by positively regulating the activities of antioxidant enzymes CsPrx53 and CsSOD13. These mechanisms provide promising strategies for the prevention of CBC.
HORTICULTURE RESEARCH
(2023)
Article
Chemistry, Analytical
Ze Fan, Cai-Xia Dou, Li-Juan Tang, Fenglin Wang, Jian-Hui Jiang
Summary: Genetically encoded sensors with a modular design have been developed for ratiometric and multiplexed imaging of small molecules in live cells. The sensors use aptazyme as a recognition module and light-up RNA aptamer as a signal reporter. The design allows for quantitative imaging and detection of small molecules, and the versatility of the approach is demonstrated by replacing the aptazymes for imaging different molecules.
ANALYTICAL CHEMISTRY
(2023)