Young Jong Lee*, Seong-Min Kim, Sang Hak Lee, Charles H. Camp Jr. and Bonghwan Chon,
{"title":"","authors":"Young Jong Lee*, Seong-Min Kim, Sang Hak Lee, Charles H. Camp Jr. and Bonghwan Chon, ","doi":"","DOIUrl":"","url":null,"abstract":"","PeriodicalId":27,"journal":{"name":"Analytical Chemistry","volume":"97 28","pages":"XXX-XXX XXX-XXX"},"PeriodicalIF":6.7,"publicationDate":"2025-07-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://pubs.acs.org/doi/pdf/10.1021/acs.analchem.5c02700","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144671519","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Ultra-Photostable Fluorescent Boron-Bridged Near-Infrared Probes to Reveal New Mode of Lipid Droplet-Mitochondria Interaction at STED Super-Resolution.","authors":"Mingyue Cao,Xiaoming Zhu,Yunting Liu,Yangang Su,Xinru Hu,Zhiqiang Liu,Xiaoqiang Yu","doi":"10.1021/acs.analchem.5c02739","DOIUrl":"https://doi.org/10.1021/acs.analchem.5c02739","url":null,"abstract":"Interactions between lipid droplets (LDs) and mitochondria are vital for maintaining the cellular metabolism and energy homeostasis. However, visualizing these interaction dynamics at a high resolution in live cells is still very challenging. Here, a boron-bridged near-infrared probe (QI-BF) was developed specifically for low-power stimulated emission depletion (STED) super-resolution imaging of LDs. QI-BF exhibited excellent photostability and enabled continuous scanning of 1000+ frames using a STED laser (0.96 MW cm-2, 775 nm), without significant fluorescence decay. Furthermore, dynamic dual-color STED super-resolution visualization of the morphological interactions between LDs and mitochondria was achieved with the aid of commercial mitochondrial dyes. For the first time, the dynamic process of mitochondrial wrapping around the LDs and LD-mediated mitochondria tubulation were successfully captured. This study sheds light on developing ultraphotostable organic fluorescent probes for versatile low-power STED nanoscopy.","PeriodicalId":27,"journal":{"name":"Analytical Chemistry","volume":"25 1","pages":""},"PeriodicalIF":7.4,"publicationDate":"2025-07-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144684069","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Joelle Houriet,Preston K Manwill,Armando Alcázar Magaña,Victoria M Anderson,Mehdi A Beniddir,Samuel Bertrand,Jaewoo Choi,Trevor N Clark,Leonard J Foster,Maria Halabalaki,Alan K Jarmusch,Niek F de Jonge,Aswad Khadilkar,John B MacMillan,Claudia S Maier,Luke C Marney,Guillaume Marti,Eleni V Mikropoulou,Damien Olivier-Jimenez,Amélie Perez,Justin J J van der Hooft,Mitja M Zdouc,Roger G Linington,Nadja B Cech
{"title":"Multilaboratory Untargeted Mass Spectrometry Metabolomics Collaboration to Identify Bottlenecks and Comprehensively Annotate A Single Dataset.","authors":"Joelle Houriet,Preston K Manwill,Armando Alcázar Magaña,Victoria M Anderson,Mehdi A Beniddir,Samuel Bertrand,Jaewoo Choi,Trevor N Clark,Leonard J Foster,Maria Halabalaki,Alan K Jarmusch,Niek F de Jonge,Aswad Khadilkar,John B MacMillan,Claudia S Maier,Luke C Marney,Guillaume Marti,Eleni V Mikropoulou,Damien Olivier-Jimenez,Amélie Perez,Justin J J van der Hooft,Mitja M Zdouc,Roger G Linington,Nadja B Cech","doi":"10.1021/acs.analchem.4c05577","DOIUrl":"https://doi.org/10.1021/acs.analchem.4c05577","url":null,"abstract":"Annotation is the process of assigning features in mass spectrometry metabolomics data sets to putative chemical structures or \"analytes.\" The purpose of this study was to identify challenges in the annotation of untargeted mass spectrometry metabolomics datasets and suggest strategies to overcome them. Toward this goal, we analyzed an extract of the plant ashwagandha (Withania somnifera) using liquid chromatography-mass spectrometry on two different platforms (an Orbitrap and Q-ToF) with various acquisition modes. The resulting 12 datasets were shared with ten teams that had established expertise in metabolomics data interpretation. Each team annotated at least one positive ion dataset using their own approaches. Eight teams selected the positive ion mode data-dependent acquisition (DDA) data collected on the Orbitrap platform, so the results reported for that dataset were chosen for an in-depth comparison. We compiled and cross-checked the annotations of this dataset from each laboratory to arrive at a \"consensus annotation,\" which included 142 putative analytes, of which 13 were confirmed by comparison with standards. Each team only reported a subset (24 to 57%) of the analytes in the consensus list. Correct assignment of ion species (clusters and fragments) in MS spectra was a major bottleneck. In many cases, in-source redundant features were mistakenly considered to be independent analytes, causing annotation errors and resulting in overestimation of sample complexity. Our results suggest that better tools/approaches are needed to effectively assign feature identity, group related mass features, and query published spectral and taxonomic data when assigning putative analyte structures.","PeriodicalId":27,"journal":{"name":"Analytical Chemistry","volume":"15 1","pages":""},"PeriodicalIF":7.4,"publicationDate":"2025-07-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144684070","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Zhaoyang Ye,Yuxiang Zhao,Feixiang Fang,Jingjing Song,Heyan Chen,Yizhou Xu,Zheng Wang,Fei Li
{"title":"Reactive Oxygen and Nitrogen Species Release of Single Pancreatic Cancer Cells Subjected to Pulsed Electric Field Ablation: Concentration and Dynamics.","authors":"Zhaoyang Ye,Yuxiang Zhao,Feixiang Fang,Jingjing Song,Heyan Chen,Yizhou Xu,Zheng Wang,Fei Li","doi":"10.1021/acs.analchem.5c00990","DOIUrl":"https://doi.org/10.1021/acs.analchem.5c00990","url":null,"abstract":"Pancreatic cancer, recognized for its extreme lethality, is normally diagnosed at an advanced stage, leaving only a minority of patients eligible for surgical resection. Pulsed electric field (PEF) ablation, an ablative technique for clinical treatment of locally advanced pancreatic cancer, causes tumor cell death by disrupting cellular redox balance, resulting in the overproduction of reactive oxygen species (ROS) and reactive nitrogen species (RNS). In situ monitoring of the dynamic changes in ROS/RNS levels of pancreatic cancer cells under PEF ablation is important for understanding its mechanism for pancreatic cancer treatment. Here, we constructed an in vitro pancreatic cancer cell model via culturing PANC-1 cells on polyacrylamide gels with a stiffness of 4.0 kPa to simulate the mechanical microenvironment of advanced pancreatic cancer stage. We then established a theoretical model and simulated the electric field strengths of PEF ablation used for the clinical treatment of pancreatic cancer. After applying PEF ablation with these electric field strengths on the in vitro pancreatic cancer cell model, we in situ monitored the dynamic releasing processes of hydrogen peroxide (H2O2) and nitric oxide (NO) from PANC-1 cells by employing scanning electrochemical microscopy (SECM). Through quantitative analysis of SECM results, we found that the electric field strengths of PEF ablation over 1.5 kV cm-1 caused cells to exhibit periodic bursts of H2O2 and NO effluxes during the initial 5 min and then reduced to their initial values within 6 min after treatment, while mitochondrial dysfunction persisted. It demonstrates a prolonged impact of electric field strength on disrupting cellular redox balance, offering valuable insights into the mechanism of electric field strength-dependent redox imbalance of pancreatic cancer under electric ablation.","PeriodicalId":27,"journal":{"name":"Analytical Chemistry","volume":"76 1","pages":""},"PeriodicalIF":7.4,"publicationDate":"2025-07-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144684307","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
John T. Kelly*, Christopher J. Koch, Tyler Guin, Alexandria G. Watrous and Ryan C. Fortenberry,
{"title":"","authors":"John T. Kelly*, Christopher J. Koch, Tyler Guin, Alexandria G. Watrous and Ryan C. Fortenberry, ","doi":"","DOIUrl":"","url":null,"abstract":"","PeriodicalId":27,"journal":{"name":"Analytical Chemistry","volume":"97 28","pages":"XXX-XXX XXX-XXX"},"PeriodicalIF":6.7,"publicationDate":"2025-07-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://pubs.acs.org/doi/pdf/10.1021/acs.analchem.5c01241","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144671434","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
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